[phenixbb] "Open in Coot" not working on 1.6.1-357

RaDaniel Christian 성준 rendereason at gmail.com
Fri Jun 18 16:17:37 PDT 2010


After trying to 'open in coot' with phenix (431) running in --debug mode
from terminal, coot loads correctly and opens the file. Attached is the
output in terminal for the program.
Then I tried 'Open in Coot' with phenix running from the dock icon (I tried
both 431 and 357) and only the splash screen for Coot shows up, but the
program fails to start. No window or anything, only X11 runs.
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phenix --debug
XML-RPC server started on port 35461
parse_command_line_phil_args (App.py:770): parsing file /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/.phenix/project_data/refine_2.eff
__init__ (PhilLayout.py:230): started
setup_app (MainWindow.py:986): started
setup_app (MainWindow.py:513): started
update_widget_value (PhilInterface.py:426): widget not found: refinement.input.xray_data.r_free_flags.test_flag_value
update_widget_value (PhilInterface.py:426): widget not found: refinement.input.neutron_data.r_free_flags.test_flag_value
update_widget_value (PhilInterface.py:426): widget not found: refinement.input.neutron_data.r_free_flags.test_flag_value
Restoring results from /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2
add_result_file (Templates.py:612): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.eff Effective parameters for this run
add_file (AdvancedWidgets.py:337): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.eff
add_result_file (Templates.py:612): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.geo Geometry restraints before refinement
add_file (AdvancedWidgets.py:337): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.geo
_add_any_file (AdvancedWidgets.py:357): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.geo
add_result_file (Templates.py:612): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.log phenix.refine log file
add_file (AdvancedWidgets.py:337): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.log
_add_any_file (AdvancedWidgets.py:357): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.log
add_result_file (Templates.py:612): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_2mFo-DFc.map SigmaA-weighted 2Fo-Fc map
add_file (AdvancedWidgets.py:337): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_2mFo-DFc.map
_add_any_file (AdvancedWidgets.py:357): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_2mFo-DFc.map
add_result_file (Templates.py:612): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_2mFo-DFc_no_fill.map SigmaA-weighted 2Fo-Fc map
add_file (AdvancedWidgets.py:337): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_2mFo-DFc_no_fill.map
_add_any_file (AdvancedWidgets.py:357): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_2mFo-DFc_no_fill.map
add_result_file (Templates.py:612): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_info.txt Run summary in text format
add_file (AdvancedWidgets.py:337): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_info.txt
_add_any_file (AdvancedWidgets.py:357): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_info.txt
add_result_file (Templates.py:612): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz Map coefficients for Coot
add_file (AdvancedWidgets.py:337): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz
add_result_file (Templates.py:612): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_mFo-DFc.map SigmaA-weighted difference map
add_file (AdvancedWidgets.py:337): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_mFo-DFc.map
_add_any_file (AdvancedWidgets.py:357): /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_mFo-DFc.map
launch_coot_server (External.py:21): PHENIX_COOT=/sw64/bin/coot
launch_coot_server (External.py:26): coot command:
launch_coot_server (External.py:27): phenix.start_coot --no-state-script --script "/usr/local/phenix-1.6.2-431/phenix/wxGUI2/Coot.py"
Coot: Acquiring application resources from /sw64/share/coot/cootrc
Coot: INFO:: splash_screen_pixmap_dir /sw64/share/coot/pixmaps
Coot: INFO:: Colours file: /sw64/share/coot/colours.def loaded
Coot: There are 118 data in /sw64/share/coot/lib/data/monomers/list/mon_lib_list.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/a/ALA.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/a/ASP.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/a/ASN.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/c/CYS.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/g/GLN.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/g/GLY.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/g/GLU.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/p/PHE.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/h/HIS.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/i/ILE.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/l/LYS.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/l/LEU.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/m/MET.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/m/MSE.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/p/PRO.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/a/ARG.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/s/SER.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/t/THR.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/v/VAL.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/t/TRP.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/t/TYR.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/p/PO4.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/s/SO4.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/g/GOL.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/e/ETH.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/c/CIT.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/a/AR.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/a/AD.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/c/CR.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/c/CD.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/g/GR.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/g/GD.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/t/TD.cif
Coot: There are 2 data in /sw64/share/coot/lib/data/monomers/u/UR.cif
Coot: sbase monomer dir: .
Coot: sbase files not found in .
Coot: Reading coordinate file: /sw64/share/coot/standard-residues.pdb
Coot: PDB file /sw64/share/coot/standard-residues.pdb has been read.
Coot: Spacegroup: P 1
Coot: Cell: 40.631 109.18 93.243 90 90 90
Coot: initalize graphics molecules...done.
Coot: (filter-fileselection-filenames-state)
Coot: (get-active-map-drag-flag)
Coot: (use-graphics-interface-state)
Coot: DEBUG:: stating pydirectory /sw64/share/coot/python
Coot: INFO:: importing coot.py from /sw64/share/coot/python/coot.py
Coot: Importing python module coot using command from coot import *
Coot: INFO:: coot.py imported
Coot: INFO:: coot_python initialized
Coot: INFO loading coot python modules
Coot: Running python script /sw64/share/coot/python/coot_load_modules.py
Coot: Loading: coot_utils.py
Coot: Loading: filter.py
Coot: Loading: coot_lsq.py
Coot: Loading: shelx.py
Coot: Loading: get_ebi.py
Coot: Loading: local_code.py
Coot: Loading: hello.py
Coot: Good Evening Choelkim, Welcome to Coot. 0.6.2-pre-1 (revision 2965)  [with guile 1.8.6 embedded] [with python 2.6.5 embedded]
Coot: (set-display-intro-string "Good Evening Choelkim, Welcome to Coot. 0.6.2-pre-1 (revision 2965)  [with guile 1.8.6 embedded] [with python 2.6.5 embedded]")
Coot: Loading: mutate.py
Coot: Loading: refmac.py
Coot: Loading: libcheck.py
Coot: Loading: gap.py
Coot: Loading: fitting.py
Coot: Loading: raster3d.py
Coot: Loading: povray.py
Coot: Loading: remote_control.py
Coot: Loading: generic_objects.py
Coot: Loading: ncs.py
Coot: Loading: parse_pisa_xml.py
Coot: Loading: cns2coot.py
Coot: Loading: tips.py
Coot: Loading: americanisms.py
Coot: Loading: group_settings.py
Coot: Loading: brute_lsqman.py
Coot: Loading: coot_gui.py
Coot: Coot Python Scripting GUI code found and loaded.
Coot: Loading: tips_gui.py
Coot: Loading: check_for_updates.py
Coot: Loading: shelx_extensions.py
Coot: Loading: clear_backup.py
Coot: Loading: coot_toolbuttons.py
Coot: INFO:: loading preferences file /Volumes/RAID1/admin/.coot-preferences/coot_preferences.py
Coot: Running python script /Volumes/RAID1/admin/.coot-preferences/coot_preferences.py
Coot: (set-filter-fileselection-filenames 0)
Coot: (unset-sticky-sort-by-date)
Coot: (set-colour-map-rotation-on-read-pdb 21.00)
Coot: (set-colour-map-rotation-on-read-pdb-c-only-flag 1)
Coot: (set-density-size 10.00)
Coot: (set-swap-difference-map-colours 1)
Coot: (set-active-map-drag-flag 1)
Coot: (set-idle-function-rotate-angle  1.00)
Coot: (filter-fileselection-filenames-state)
Coot: (get-active-map-drag-flag)
Coot: (use-graphics-interface-state)
Coot: Loading scheme files from /sw64/share/coot/scheme
Coot: Coot Scheme Scripting GUI code found and loaded.
Coot: (set-display-intro-string "Good evening Choel. Welcome to Coot")
Coot: (set-display-lists-for-maps 0)
Coot: INFO:: loading preferences file /Volumes/RAID1/admin/.coot-preferences/coot-preferences.scm
Coot: (set-filter-fileselection-filenames 0)
Coot: (unset-sticky-sort-by-date)
Coot: (set-colour-map-rotation-on-read-pdb 21.00)
Coot: (set-colour-map-rotation-on-read-pdb-c-only-flag 1)
Coot: (set-density-size 10.00)
Coot: (set-swap-difference-map-colours 1)
Coot: (set-active-map-drag-flag 1)
Coot: (set-idle-function-rotate-angle  1.00)
Coot: (filter-fileselection-filenames-state)
Coot: (get-active-map-drag-flag)
Coot: Loading ~/.coot...done.
Coot: Running python script /usr/local/phenix-1.6.2-431/phenix/wxGUI2/Coot.py
Coot: Loading PHENIX Coot extensions. . .
Coot: xml-rpc server running on port 46712
Coot: INFO:: Command: (set-find-hydrogen-torsion 1)
Coot: INFO:: Command: (use-graphics-interface-state)
Coot: coot_phenix_interface.close_tmp_model()
Coot: coot_phenix_interface.close_all()
Coot: coot_phenix_interface.load_phenix_refine_final_files(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2, PKG_CBDA_APO_refine_2)
Coot: INFO:: Command: (handle-read-draw-molecule-with-recentre "/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.pdb" 1)
Coot: Reading coordinate file: /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.pdb
Coot: PDB file /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.pdb has been read.
Coot: Spacegroup: P 43
Coot: Cell: 62.584 62.584 199.518 90 90 90
Coot: INFO:: Found 1 models
Coot: Model 1 had 0 links
Coot: Symmetry available for this molecule
Coot: INFO:: NCS chain comparison 123/128
Coot: INFO:: NCS chain comparison 123/128
Coot: INFO:: NCS chain comparison 122/128
Coot: INFO:: NCS chain comparison 0/128
Coot: INFO:: NCS chain comparison 0/128
Coot: INFO:: NCS chain comparison 0/128
Coot: INFO:: NCS chain comparison 0/128
Coot: INFO:: NCS chain comparison 1/1
Coot: INFO:: NCS chain comparison 0/1
Coot: INFO:: NCS chain comparison 0/1
Coot: INFO:: NCS chain comparison 1/1
Coot: INFO:: fill_ghost_info Constructed 5 ghosts
Coot: Ghost 0 name: "NCS found from matching Chain B onto Chain A"
Coot: Ghost 1 name: "NCS found from matching Chain C onto Chain A"
Coot: Ghost 2 name: "NCS found from matching Chain D onto Chain A"
Coot: Ghost 3 name: "NCS found from matching Chain H onto Chain G"
Coot: Ghost 4 name: "NCS found from matching Chain F onto Chain E"
Coot: Molecule 0 read successfully
Coot: INFO:: Command: (set-molecule-bonds-colour-map-rotation 0 30.00)
Coot: coot_phenix_interface.auto_load_maps(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz, phi=PH)
Coot: INFO:: Command: (set-colour-map-rotation-for-maps  0.00)
Coot: valid_labels(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz,2FOFCWT,PH2FOFCWT,,0) returns 1
Coot: INFO:: Command: (make-and-draw-map "/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz" "2FOFCWT" "PH2FOFCWT" "" 0 0)
Coot: INFO:: making map from mtz filename /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz
Coot: Number of OBSERVED reflections: 25085
Coot: INFO:: finding ASU unique map points with sampling rate 1.5
Coot: INFO grid sampling...Nuvw = (  80,  80, 240)
Coot: INFO:: 0.395 seconds to read MTZ file
Coot: INFO:: 0.857 seconds to initialize map
Coot: INFO:: 0.152 seconds for FFT
Coot: INFO:: 0.049 seconds for statistics
Coot: Map mean: ........ -9.54107e-11
Coot: Map sigma: ....... 0.118475
Coot: Map maximum: ..... 0.915382
Coot: Map minimum: ..... -0.497048
Coot: INFO:: 0.015 seconds for contour map
Coot: INFO:: 1.468 seconds in total
Coot: valid_labels(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz,FOFCWT,PHFOFCWT,,0) returns 1
Coot: INFO:: Command: (make-and-draw-map "/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz" "FOFCWT" "PHFOFCWT" "" 0 1)
Coot: INFO:: making map from mtz filename /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz
Coot: Number of OBSERVED reflections: 20657
Coot: INFO:: finding ASU unique map points with sampling rate 1.5
Coot: INFO grid sampling...Nuvw = (  80,  80, 240)
Coot: INFO:: 0.143 seconds to read MTZ file
Coot: INFO:: 0.004 seconds to initialize map
Coot: INFO:: 0.137 seconds for FFT
Coot: INFO:: 0.049 seconds for statistics
Coot: Map mean: ........ -1.5539e-11
Coot: Map sigma: ....... 0.0481121
Coot: Map maximum: ..... 0.317881
Coot: Map minimum: ..... -0.318594
Coot: INFO:: 0.005 seconds for contour map
Coot: INFO:: 0.338 seconds in total
Coot: INFO:: Command: (set-colour-map-rotation-for-maps  0.00)
Coot: coot_phenix_interface.load_probe_results(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/.comm/probe.txt)
Coot: coot_phenix_interface.show_probe_dots(True, True)
Coot: coot_phenix_interface.show_probe_dots(False, True)
Coot: coot_phenix_interface.close_tmp_model()
Coot: coot_phenix_interface.close_all()
Coot: INFO:: Command: (close-molecule 0)
Coot: coot_phenix_interface.load_phenix_refine_final_files(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2, PKG_CBDA_APO_refine_2)
Coot: INFO:: Command: (handle-read-draw-molecule-with-recentre "/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.pdb" 1)
Coot: Reading coordinate file: /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.pdb
Coot: PDB file /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2.pdb has been read.
Coot: Spacegroup: P 43
Coot: Cell: 62.584 62.584 199.518 90 90 90
Coot: INFO:: Found 1 models
Coot: Model 1 had 0 links
Coot: Symmetry available for this molecule
Coot: INFO:: NCS chain comparison 123/128
Coot: INFO:: NCS chain comparison 123/128
Coot: INFO:: NCS chain comparison 122/128
Coot: INFO:: NCS chain comparison 0/128
Coot: INFO:: NCS chain comparison 0/128
Coot: INFO:: NCS chain comparison 0/128
Coot: INFO:: NCS chain comparison 0/128
Coot: INFO:: NCS chain comparison 1/1
Coot: INFO:: NCS chain comparison 0/1
Coot: INFO:: NCS chain comparison 0/1
Coot: INFO:: NCS chain comparison 1/1
Coot: INFO:: fill_ghost_info Constructed 5 ghosts
Coot: Ghost 0 name: "NCS found from matching Chain B onto Chain A"
Coot: Ghost 1 name: "NCS found from matching Chain C onto Chain A"
Coot: Ghost 2 name: "NCS found from matching Chain D onto Chain A"
Coot: Ghost 3 name: "NCS found from matching Chain H onto Chain G"
Coot: Ghost 4 name: "NCS found from matching Chain F onto Chain E"
Coot: Molecule 3 read successfully
Coot: INFO:: Command: (set-molecule-bonds-colour-map-rotation 3 30.00)
Coot: coot_phenix_interface.auto_load_maps(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz, phi=PH)
Coot: INFO:: Command: (set-colour-map-rotation-for-maps  0.00)
Coot: valid_labels(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz,2FOFCWT,PH2FOFCWT,,0) returns 1
Coot: INFO:: Command: (make-and-draw-map "/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz" "2FOFCWT" "PH2FOFCWT" "" 0 0)
Coot: INFO:: making map from mtz filename /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz
Coot: Number of OBSERVED reflections: 25085
Coot: INFO:: finding ASU unique map points with sampling rate 1.5
Coot: INFO grid sampling...Nuvw = (  80,  80, 240)
Coot: INFO:: 0.142 seconds to read MTZ file
Coot: INFO:: 0.004 seconds to initialize map
Coot: INFO:: 0.149 seconds for FFT
Coot: INFO:: 0.048 seconds for statistics
Coot: Map mean: ........ -9.54107e-11
Coot: Map sigma: ....... 0.118475
Coot: Map maximum: ..... 0.915382
Coot: Map minimum: ..... -0.497048
Coot: INFO:: 0.014 seconds for contour map
Coot: INFO:: 0.357 seconds in total
Coot: valid_labels(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz,FOFCWT,PHFOFCWT,,0) returns 1
Coot: INFO:: Command: (make-and-draw-map "/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz" "FOFCWT" "PHFOFCWT" "" 0 1)
Coot: INFO:: making map from mtz filename /Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/PKG_CBDA_APO_refine_2_map_coeffs.mtz
Coot: Number of OBSERVED reflections: 20657
Coot: INFO:: finding ASU unique map points with sampling rate 1.5
Coot: INFO grid sampling...Nuvw = (  80,  80, 240)
Coot: INFO:: 0.142 seconds to read MTZ file
Coot: INFO:: 0.003 seconds to initialize map
Coot: INFO:: 0.138 seconds for FFT
Coot: INFO:: 0.048 seconds for statistics
Coot: Map mean: ........ -1.5539e-11
Coot: Map sigma: ....... 0.0481121
Coot: Map maximum: ..... 0.317881
Coot: Map minimum: ..... -0.318594
Coot: INFO:: 0.005 seconds for contour map
Coot: INFO:: 0.336 seconds in total
Coot: INFO:: Command: (set-colour-map-rotation-for-maps  0.00)
Coot: coot_phenix_interface.load_probe_results(/Volumes/RAID1/Jeong/Phenix/PKG_CBDA/APO/Refine_2/.comm/probe.txt)
Coot: coot_phenix_interface.show_probe_dots(False, True)
Coot: coot_phenix_interface.is_alive()


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