<html>
<head>
<meta content="text/html; charset=ISO-8859-1"
http-equiv="Content-Type">
</head>
<body bgcolor="#FFFFFF" text="#000000">
Dear Chen,<br>
<br>
What version of Phenix are you using? phenix.composite_omit_map was
recently added (post 1.8.4 release). Are you using a recent nightly
(presumably dev-1579 as you suggest or even newer, like the release
candidate for 1.9)?<br>
<br>
Engin<br>
<br>
<div class="moz-cite-prefix">On 4/21/14, 12:05 PM, Chen Zhao wrote:<br>
</div>
<blockquote
cite="mid:CAADX8kCJSPLfxeKw+_+=oK477cuNe-KHJpRvYy7F=wsk+2gSaA@mail.gmail.com"
type="cite">
<meta http-equiv="Content-Type" content="text/html;
charset=ISO-8859-1">
<div dir="ltr">
<div>Thank you Tom,<br>
<br>
I understand what "command not found" mean, but I already
sourced "phenix_env" in my bashrc. "phenix.list" works, also I
have already run "phenix.autosol", "phenix.autobuild",
"phenix.refine" without any problems.<br>
<br>
</div>
<div>Thank you so much again!<br>
<br>
</div>
<div>Sincerely,<br>
Chen<br>
</div>
</div>
<div class="gmail_extra"><br>
<br>
<div class="gmail_quote">On Mon, Apr 21, 2014 at 1:01 PM,
Terwilliger, Thomas C <span dir="ltr"><<a
moz-do-not-send="true" href="mailto:terwilliger@lanl.gov"
target="_blank">terwilliger@lanl.gov</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">
<div style="word-wrap:break-word">
Hi Chen,
<div><br>
</div>
<div>"command not found" usually means the shell cannot
find a particular command. It often can be fixed by
sourcing the right setup commands. </div>
<div><br>
</div>
<div>If you type:</div>
<div><br>
</div>
<div> phenix.list</div>
<div><br>
</div>
<div>does it also say "command not found"? If so, you
just need to source the phenix version you want. When
you install it phenix lists where this directory is...If
you are on a mac you will say something like this:</div>
<div><br>
</div>
<div> source /Applications/PHENIX-1.8.3-1479/Contents/phenix-1.8.3-1479/phenix_env</div>
<div><br>
</div>
<div>and you can put that in your .cshrc file too (if you
are using csh).</div>
<div><br>
</div>
<div>Let me know if that doesn't do it!</div>
<div class="">
<div>All the best,</div>
<div>Tom T</div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
</div>
<div><br>
<div>
<div class="">
<div>On Apr 21, 2014, at 10:53 AM, Chen Zhao wrote:</div>
<br>
</div>
<div>
<div class="h5">
<blockquote type="cite">
<div dir="ltr">
<div>Dear all,<br>
<br>
Hello! I am now running into a simple
technical problem but I just cannot figure
it out. I am trying to create a composite
omit map by phenix, but when I typed in the
command<tt><span> phenix.composite_omit_map
XXX.eff</span></tt> based on the
instructions on <a moz-do-not-send="true"
href="http://www.phenix-online.org/version_docs/dev-1579/composite_omit_map.htm"
target="_blank">
http://www.phenix-online.org/version_docs/dev-1579/composite_omit_map.htm</a>,
I got the error message "command not found".
Could anybody help me out?<br>
<br>
Thank you so much in advance!<br>
<br>
</div>
Sincerely,<br>
Chen<br>
</div>
</blockquote>
</div>
</div>
</div>
<br>
</div>
</div>
</blockquote>
</div>
<br>
</div>
<br>
<fieldset class="mimeAttachmentHeader"></fieldset>
<br>
<pre wrap="">_______________________________________________
phenixbb mailing list
<a class="moz-txt-link-abbreviated" href="mailto:phenixbb@phenix-online.org">phenixbb@phenix-online.org</a>
<a class="moz-txt-link-freetext" href="http://phenix-online.org/mailman/listinfo/phenixbb">http://phenix-online.org/mailman/listinfo/phenixbb</a>
</pre>
</blockquote>
<br>
<pre class="moz-signature" cols="72">--
Assistant Professor
Dept of Biochemistry and Molecular Biology
University of Chicago</pre>
</body>
</html>