[Bug 472150] Review Request: coot - crystallographic macromolecular building toolkit

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Tue Sep 22 14:29:26 UTC 2009


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https://bugzilla.redhat.com/show_bug.cgi?id=472150





--- Comment #23 from Adam Huffman <bloch at verdurin.com>  2009-09-22 10:29:22 EDT ---
Just to let you know, tried building this on an F10 box with a Koji-build
version of MMDB.  The build failed with the following error:

g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\"
-DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"co
ot\" -DVERSION=\"0.6-pre-1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1
-DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_M
EMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1
-DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -I. -I../compat -I../coords -
I../ccp4mg-utils -I../coot-utils -I../intl -I../skeleton -I../angles
-I../atom-utils -I../db-main -I../mini-mol -I../ligand -I../se
quence-view -I../geometry -I../ideal -I../coot-surface -I../surface
-I../density-contour -I../build -I../high-res -I../analysis -I.
./cootaneer -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE   -pthread  -DHAVE_GNOME_CANVAS
-I/usr/include/libgnomecanvas-2.0 -I/usr/include/pa
ngo-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0
-I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include
-I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include
-I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libpng12  
-DCOOT_USE_GTK2_INTERFACE  -I/usr/include/gtkglext-1.0
-I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0
-I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0
-I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1
-I/usr/include/freetype2 -I/usr/include/libpng12 -I/usr/include/atk-1.0  
-I/usr/include/libglade-2.0 -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include
-I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0
-I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1
-I/usr/include/freetype2 -I/usr/include/libpng12  -DHAVE_SSMLIB  
-DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP   -I/usr/include
-I/usr/include/gpp4   -I/usr/include/pygtk-2.0 -I/usr/include/glib-2.0
-I/usr/lib64/glib-2.0/include    -I/usr/include/mmdb -I/usr/include/ssm
-DPKGDATADIR='"/usr/share/coot"'
-DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"'
-DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-fedora-10-python-gtk2"'
-DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE  -pthread -DUSE_PYTHON
-I/usr/include/python2.5 -DUSE_PYGTK  -DHAVE_GSL -O2 -g -pipe -Wall
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector
--param=ssp-buffer-size=4 -m64 -mtune=generic -fno-strict-aliasing -MT
c-interface-gui.o -MD -MP -MF .deps/c-interface-gui.Tpo -c -o c-interface-gui.o
c-interface-gui.cc
c-interface-gui.cc: In function 'void coot_real_exit(int)':
c-interface-gui.cc:1208: error: 'class clipper::ClipperInstance' has no member
named 'destroy'
c-interface-gui.cc: In function 'void add_filechooser_filter_button(GtkWidget*,
short int)':
c-interface-gui.cc:1279: warning: unused variable 'i'
c-interface-gui.cc: In function 'void
add_recentre_on_read_pdb_checkbutton(GtkWidget*)':
c-interface-gui.cc:1763: warning: unused variable 'tooltips'
c-interface-gui.cc: In function 'void
set_refine_params_toggle_buttons(GtkWidget*)':
c-interface-gui.cc:2319: warning: unused variable 'link_torsion_type_vbox'
c-interface-gui.cc: In function 'void show_model_toolbar_all_icons()':
c-interface-gui.cc:2595: warning: comparison between signed and unsigned
integer expressions
c-interface-gui.cc: In function 'void show_model_toolbar_main_icons()':
c-interface-gui.cc:2622: warning: comparison between signed and unsigned
integer expressions
c-interface-gui.cc: In function 'void update_model_toolbar_icons_menu()':
c-interface-gui.cc:2654: warning: comparison between signed and unsigned
integer expressions
c-interface-gui.cc: In function 'void fill_go_to_atom_window(GtkWidget*)':
c-interface-gui.cc:4509: warning: unused variable 'text'
c-interface-gui.cc: In function 'GtkWidget*
wrapped_create_add_additional_representation_gui()':
c-interface-gui.cc:5181: warning: unused variable 'chain_id_entry'
c-interface-gui.cc:5182: warning: unused variable 'resno_start_entry'
c-interface-gui.cc:5183: warning: unused variable 'resno_end_entry'
c-interface-gui.cc:5184: warning: unused variable 'ins_code_entry'
c-interface-gui.cc:5185: warning: unused variable 'string_selection_entry'
c-interface-gui.cc:5187: warning: unused variable 'position_radiobutton'
c-interface-gui.cc:5188: warning: unused variable 'resno_radiobutton'
c-interface-gui.cc:5189: warning: unused variable
'selection_string_radiobutton'
c-interface-gui.cc:5191: warning: unused variable
'add_reps_fat_bonds_radiobutton'
c-interface-gui.cc:5192: warning: unused variable
'add_reps_ball_and_stick_radiobutton'
c-interface-gui.cc: In function 'void
add_additional_representation_by_widget(GtkWidget*)':
c-interface-gui.cc:5215: warning: unused variable 'option_menu'
c-interface-gui.cc:5227: warning: unused variable
'add_reps_fat_bonds_radiobutton'
c-interface-gui.cc: In function 'void show_restraints_editor_by_index(int)':
c-interface-gui.cc:5334: warning: comparison between signed and unsigned
integer expressions

There were further warnings after this.  The version of clipper installed is
clipper-2.1-4.fc10.x86_64

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