Re: [phenixbb] phenix.real_space_refine

Yes, this is true... I deleted mmtbx.refinement.real_space.driver a while ago. Interesting, it still works for me because I still have ../sources/cctbx_project/mmtbx/refinement/real_space/driver.pyc Once I deleted .pyc file it stopped working: marbles:/net/marbles/raid1/afonine/build % phenix.real_space_refine ------------------------------------------------------------------------------- Initialization, inputs ********************** ------------------------------------------------------------------------------- phenix.real_space_refine: tool for extensive real-space refinement of atomic coordinates against provided map Usage: phenix.real_space_refine model.pdb ccp4_formatted_map.map or phenix.real_space_refine model.pdb map.mtz or phenix.real_space_refine model.pdb map.mtz label='2FOFCWT,PH2FOFCWT' Feedback: [email protected] or [email protected] ------------------------------------------------------------------------------- marbles:/net/marbles/raid1/afonine/build % rm -rf ../sources/cctbx_project/mmtbx/refinement/real_space/driver.pyc marbles:/net/marbles/raid1/afonine/build % phenix.real_space_refine Traceback (most recent call last): File "/net/marbles/raid1/afonine/build/../sources/phenix/phenix/command_line/real_space_refine.py", line 20, in <module> import mmtbx.refinement.real_space.driver ImportError: No module named driver marbles:/net/marbles/raid1/afonine/build % Quite a trap! Will be fixed in a next build. Thanks for catching this. Pavel On 8/23/13 7:44 AM, Nathaniel Echols wrote:

On Fri, Aug 23, 2013 at 12:14 AM, Pavel Afonine mailto:[email protected]> wrote:

are you sure you are using the latest (dev-1463) nightly build? I just tried phenix.real_space_refine using dev-1463 and it worked fine. Could it be you have multiple versions installed and by accident you used a wrong one? What was the exact command that crashed with the above error message? Just throwing random guesses/questions to see what's gone wrong..

It's not working for me either; the module being referenced has been deleted:

chevy:~ % source /net/chevy/raid1/phenix/phenix-dev-1463/phenix_env chevy:~ % phenix.real_space_refine Traceback (most recent call last): File "/net/chevy/raid1/phenix/phenix-dev-1463/build/intel-linux-2.6-x86_64/../../phenix/phenix/command_line/real_space_refine.py", line 20, in <module> import mmtbx.refinement.real_space.driver ImportError: No module named driver

It was removed in CCTBX revision 17833:

http://sourceforge.net/p/cctbx/code/17833/

-Nat

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