[phenixbb] Phenix installation on Debian9.6

Robert Oeffner rdo20 at cam.ac.uk
Tue Jan 8 06:43:49 PST 2019


Dear Danilo,


I encountered the same problem with the locale when installing Phenix on 
Ubuntu on Windows 10. The solution was to do from a bash shell:


*cd /usr/share/locale*

**

*sudo locale-gen "en_GB.UTF-8"*

**

*sudo dpkg-reconfigure locales*

I'm no linux expert so I wouldn't know if this procedure is general 
enough that it would work on your system or if it would also solve the 
other issues you mention before.

Regards,

Rob



On 08/01/2019 14:32, Danilo Belviso wrote:
> Dear all,
>
> I am intalling phenix on my Debian 9.6.
>
> My arch is adm64 thus I downloaded the phenix version named Kernel 2.6 
> (64-bit; CentOS 6).
>
> The installation procedure has been performed as suggested by the 
> guide and no problems were obtained. However, by running phenix (after 
> source phenix_env.sh) I get the follow output with several errors:
>
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_unref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_unref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_unref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GIO-CRITICAL **: g_loadable_icon_load: assertion 
> 'G_IS_LOADABLE_ICON (icon)' failed
> (main.py:14196): Gtk-WARNING **: Error loading theme icon 'gtk-ok' for 
> stock: Failed to load icon
> (main.py:14196): Gtk-CRITICAL **: render_fallback_image: assertion 
> 'pixbuf != NULL' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_ref: assertion 
> 'G_IS_OBJECT (object)' failed
> (main.py:14196): GLib-GObject-CRITICAL **: g_object_unref: assertion 
> 'G_IS_OBJECT (object)' failed
>
> Error in sys.excepthook:
> Traceback (most recent call last):
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/App.py", 
> line 886, in _excepthook
>     Error.show_exception_dialog(type, value, traceback)
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/Error.py", 
> line 75, in show_exception_dialog
>     if (app.bug_timer.IsRunning() is False):
> AttributeError: 'PhenixApp' object has no attribute 'bug_timer'
>
> Original exception was:
> Traceback (most recent call last):
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/build/../modules/phenix/wxGUI2/command_line/main.py", 
> line 23, in <module>
>     run(sys.argv[1:])
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/build/../modules/phenix/wxGUI2/command_line/main.py", 
> line 17, in run
>     wxapp = App.PhenixApp(args)
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/App.py", 
> line 70, in __init__
>     wx.App.__init__(self, 0)
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/base/lib/python2.7/site-packages/wx-3.0-gtk2/wx/_core.py", 
> line 8628, in __init__
>     self._BootstrapApp()
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/base/lib/python2.7/site-packages/wx-3.0-gtk2/wx/_core.py", 
> line 8196, in _BootstrapApp
>     return _core_.PyApp__BootstrapApp(*args, **kwargs)
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/App.py", 
> line 116, in OnInit
>     self.start_gui()
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/App.py", 
> line 144, in start_gui
>     callback_on_import=self.show_message)
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/Tracking.py", 
> line 280, in start_tracking
>     project_class="wxGUI2.Tracking.phenix_project_database", **kwds)
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/phenix/tracking/__init__.py", 
> line 19, in start_tracking
>     callback_on_import=callback_on_import)
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/Tracking.py", 
> line 117, in __init__
>     super(phenix_project_database, self).__init__(*args, **kwds)
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/phenix/tracking/project_db.py", 
> line 39, in __init__
>     self.choose_project(try_current_dir=True)
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/phenix/tracking/project_db.py", 
> line 339, in choose_project
>     project_info = self.create_first_project()
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/Tracking.py", 
> line 124, in create_first_project
>     from wxGUI2.Home import Projects
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/Home/Projects.py", 
> line 3, in <module>
>     from wxGUI2 import Base, Controls, PhilLayout, Windows, utils, 
> Buttons
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/PhilLayout.py", 
> line 5, in <module>
>     from wxGUI2 import Base, Controls, Windows, utils, PhilInterface, 
> FileDisplay
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/phenix/wxGUI2/FileDisplay.py", 
> line 5, in <module>
>     import wxtbx.info_panels
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/cctbx_project/wxtbx/info_panels.py", 
> line 5, in <module>
>     import wxtbx.plots
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/modules/cctbx_project/wxtbx/plots/__init__.py", 
> line 21, in <module>
>     locale.setlocale(locale.LC_ALL, '')
>   File 
> "/home/bbdanilo/Programmi/phenix-1.14-3260/base/lib/python2.7/locale.py", 
> line 581, in setlocale
>     return _setlocale(category, locale)
> locale.Error: unsupported locale setting
>
>
>
> Phenix starts by opening a window that states "locale 'en_GB' cannot 
> be set" and abruptly closes so that I cannot use it.
>
> Do you have any suggestions to overcome such problems?
>
> I tried with Kernel 2.6 (64-bit; CentOS 5) and the 32-bit version too 
> and the result is the same.
>
> Thanks in advance for your suggestions.
>
> Danilo
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-- 
Robert Oeffner, Ph.D.
Research Associate, The Read Group
Department of Haematology,
Cambridge Institute for Medical Research
University of Cambridge
Cambridge Biomedical Campus
Wellcome Trust/MRC Building
Hills Road
Cambridge CB2 0XY

www.cimr.cam.ac.uk/investigators/read/index.html
tel: +44(0)1223 763234



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