<div dir="ltr">PhenixGurus,<div><br></div><div>I&#39;m trying to get pymol and coot to run as viewers in Phenix 1.15.2-3472-final.</div><div><br></div><div>I have PyMol version 2.3.2 installed and coot 0.8.9.1 &quot;coot-Linux-x86_64-scientific-linux-7.6-pre-release-gtk2-python&quot;.</div><div><br></div><div>I have the executables in the Linux path as per the FAQ.</div><div><br></div><div>When I click on the coot button I get another window &quot;Coot is being started with Phenix extentions pre-loaded. Depending on the computer speed, it may take several seconds for the program to open&quot;.  </div><div><br></div><div>I get this message:</div><div><br></div><div>$ phenix<br>Already checked for new versions in last 24 hours, skipping<br>/apps/packages/phenix/phenix-1.15.2-3472/build/../modules/phenix/phenix/command_line/start_coot.sh: line 37: /apps/packages/coot-installer/coot-Linux-x86_64-scientific-linux-7.6-pre-release-gtk2-python/bin/0-coot-history.py: No such file or directory<br></div><div><br></div><div>Then I click on the PyMol button and get this:</div><div><br></div><div>Could not import runpy module<br>Traceback (most recent call last):<br>  File &quot;/apps/packages/pymol/lib/python3.7/runpy.py&quot;, line 15, in &lt;module&gt;<br>    import importlib.util<br>  File &quot;/apps/packages/pymol/lib/python3.7/importlib/util.py&quot;, line 14, in &lt;module&gt;<br>    from contextlib import contextmanager<br>  File &quot;/apps/packages/pymol/lib/python3.7/contextlib.py&quot;, line 5, in &lt;module&gt;<br>    from collections import deque<br>  File &quot;/apps/packages/pymol/lib/python3.7/collections/__init__.py&quot;, line 27, in &lt;module&gt;<br>    from reprlib import recursive_repr as _recursive_repr<br>  File &quot;/apps/packages/phenix/phenix-1.15.2-3472/conda_base/lib/python2.7/site-packages/reprlib/__init__.py&quot;, line 7, in &lt;module&gt;<br>    raise ImportError(&#39;This package should not be accessible on Python 3. &#39;<br>ImportError: This package should not be accessible on Python 3. Either you are trying to run from the python-future src folder or your installation of python-future is corrupted.<br></div><div><br></div><div>$ which coot<br>/apps/packages/coot-Linux-x86_64-scientific-linux-7.6-pre-release-gtk2-python/bin/coot<br>$ which pymol<br>/apps/packages/pymol/pymol<br>$ which phenix<br>/apps/packages/phenix/phenix-1.15.2-3472/build/bin/phenix<br></div><div><br></div><div>My environment variables are:</div><div><br></div><div>export PHENIX=/apps/packages/phenix<br>export PHENIX_INSTALLER_DATE=080920070957<br>export PHENIX_VERSION=1.3<br>export PHENIX_RELEASE_TAG=final<br>export PHENIX_ENVIRONMENT=1<br>export PHENIX_MTYPE=intel-linux-2.6-x86_64<br>export PHENIX_MVERSION=linux<br>export PHENIX_USE_MTYPE=intel-linux-2.6-x86_64<br>source /apps/packages/phenix/phenix-1.15.2-3472/phenix_env.sh<br></div><div><br></div><div>export PATH=${PATH}:${APPS_ROOT}/pymol:${APPS_ROOT}/pymol/bin:${APPS_ROOT}/coot-Linux-x86_64-scientific-linux-7.6-pre-release-gtk2-python/bin:/usr/local/cuda-10.0/lib64:/usr/local/bin<br></div><div><br></div><div>export LD_LIBRARY_PATH=${APPS_ROOT}/coot-Linux-x86_64-scientific-linux-7.6-pre-release-gtk2-python/lib:/usr/local/cuda/lib64:/usr/local/cuda/lib:/usr/lib:/usr/local/lib64:/usr/local/lib:${APPS_ROOT}/cryoEF_v1.1.0/lib:/usr/local/relion3/lib:${LD_LIBRARY_PATH}<br></div><div><br></div><div>KIndly advise,</div><div><br></div><div><div dir="ltr" class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div>-Darin<br></div></div></div></div></div>