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Re: [scipion-users] eman2 and chimera issues
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From: Pablo C. <pc...@cn...> - 2019-06-13 13:08:20
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<div dir='auto'>Hi, you are probably using previous version of scipion config. Could you send the content of your $HOME/.config/scipion/scipion.conf?<div dir="auto"><br></div><div dir="auto">You might be pointing to Eman 2.12 but probably have 2.21 installed.</div><div dir="auto"><br></div><div dir="auto">If so you can:</div><div dir="auto">A. Move away the config file and make a fresh one ("scipion config" will generate it)</div><div dir="auto">B. Edit the existing config file to point to the installed version of Eman..</div><div dir="auto">C. Install Eman 2.12</div><div dir="auto"><br></div><div dir="auto">Cheers, Pablo.</div></div><div class="gmail_extra"><br><div class="gmail_quote">El 13 jun. 2019 13:10, "Wood, Katie" <K.W...@wa...> escribió:<br type="attribution" /><blockquote class="quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div>
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<p><span style="font-size:11pt">Hello,</span></p>
<p><span style="font-size:11pt"> </span></p>
<p><span style="font-size:11pt">I’m having some problems using the eman2 programs in scipion. I put in all the variables the easy refine program asks me for but I end up with the following error whenever I try to execute the program:</span></p>
<p><span style="font-size:11pt"> </span></p>
<p><i><span style="font-size:11pt">Missing Variables: </span></i></p>
<p><i><span style="font-size:11pt">EMAN2DIR: /home/u1666362/software/scipion/software/em/eman-2.12</span></i></p>
<p><i><span style="font-size:11pt"> </span></i></p>
<p><span style="font-size:11pt">I get the same error when trying to run a different eman2 program, but it doesn't happen for relion or xmipp, so I’m assuming I need to alter something eman2 related. I was wondering if anyone knew how to
fix this? I couldn't find any answers on the mailing list so far.</span></p>
<p><span style="font-size:11pt"> </span></p>
<p><span style="font-size:11pt">Also when I try to use the chimera viewer for 3D volumes it says I haven’t installed the chimera plugin, however, I have installed the plugin so I don’t know what to do to fix this either. I do have chimera
installed though on my pc (not the plugin from scipion, so have two chimeras essentially) which works and was there before I installed scipion. Do I need to uninstall that?</span></p>
<p><span style="font-size:11pt"> </span></p>
<p><span style="font-size:11pt">Thanks in advance!</span></p>
<p><span style="font-size:11pt"> </span></p>
<p><span style="font-size:11pt">Best wishes,</span></p>
<p><span style="font-size:11pt"> </span></p>
<p><span style="font-size:11pt">Katherine Wood</span></p>
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