[Bio] / FigCommon / bootstrap.pl Repository:
ViewVC logotype

Diff of /FigCommon/bootstrap.pl

Parent Directory Parent Directory | Revision Log Revision Log | View Patch Patch

revision 1.10, Thu Apr 1 12:59:40 2004 UTC revision 1.25, Tue May 17 17:36:05 2005 UTC
# Line 131  Line 131 
131    
132      my $fig = "$fig_disk/FIG";      my $fig = "$fig_disk/FIG";
133      my $data = "$fig/Data";      my $data = "$fig/Data";
134        my $sproutData = "$fig/SproutData";
135    
136      my $hostname = `hostname`;      my $hostname = `hostname`;
137      chomp $hostname;      chomp $hostname;
# Line 140  Line 141 
141      push(@$Config, ["fig", $fig, 1]);      push(@$Config, ["fig", $fig, 1]);
142      push(@$Config, ["bin", $fig_bin, 1]);      push(@$Config, ["bin", $fig_bin, 1]);
143      push(@$Config, ["ext_bin", $env_bin, 1]);      push(@$Config, ["ext_bin", $env_bin, 1]);
144        push(@$Config, ["common_runtime", $env_dir, 1]);
145        push(@$Config, ["arch", $ENV{FIGCONFIG_ENV}, 1]);
146        push(@$Config, ["var", "$fig/var", 1]);
147      push(@$Config, ["data", $data, 1]);      push(@$Config, ["data", $data, 1]);
148      push(@$Config, ["global", "$data/Global", 1]);      push(@$Config, ["global", "$data/Global", 1]);
149      push(@$Config, ["organisms", "$data/Organisms", 1]);      push(@$Config, ["organisms", "$data/Organisms", 1]);
150      push(@$Config, ["RC", "$fig_disk/FIG/ResolutionCenter", 1]);      push(@$Config, ["RC", "$fig_disk/FIG/ResolutionCenter", 1]);
151      push(@$Config, ["NR", "$fig_disk/FIG/NR", 1]);      push(@$Config, ["NR", "$fig_disk/FIG/NR", 1]);
152      push(@$Config, ["temp", "$fig_disk/FIG/Tmp", 1]);      push(@$Config, ["temp", "$fig_disk/FIG/Tmp", 1]);
153      push(@$Config, ["temp_url", "http://$hostname/FIG-Tmp", 1]);      push(@$Config, ["sproutData", $sproutData, 1]);
154      push(@$Config, ["cgi_url", "http://$hostname/FIG", 1]);  
155        my $sandbox;
156        if ($ENV{FIGCONFIG_SANDBOX})
157        {
158            $sandbox = "/$ENV{FIGCONFIG_SANDBOX}";
159        }
160    
161        push(@$Config, ["temp_url", "http://$hostname$sandbox/FIG-Tmp", 1]);
162        push(@$Config, ["cgi_url", "http://$hostname$sandbox/FIG", 1]);
163    
164      #      #
165      # Add values for a relative base href of temp and CGI pages.  The latter      # Add values for a relative base href of temp and CGI pages.  The latter
# Line 155  Line 167 
167      # sense to derive the above 2 values from these.  -- GJO      # sense to derive the above 2 values from these.  -- GJO
168      #      #
169    
170      push(@$Config, ["temp_base", "/FIG-Tmp/", 1]);      push(@$Config, ["temp_base", "$sandbox/FIG-Tmp/", 1]);
171      push(@$Config, ["cgi_base", "/FIG/", 1]);      push(@$Config, ["cgi_base", "$sandbox/FIG/", 1]);
172  }  }
173    
174  sub compute_environment  sub compute_environment
# Line 167  Line 179 
179    
180      push(@$Env, ["RTROOT", $ENV{FIG_HOME}, 0]);      push(@$Env, ["RTROOT", $ENV{FIG_HOME}, 0]);
181      push(@$Env, ["RTDIST", "\$RTROOT/dist", 0]);      push(@$Env, ["RTDIST", "\$RTROOT/dist", 0]);
182        push(@$Env, ["RTSITECONFIGDIR", "\$RTROOT/config", 0]);
183      push(@$Env, ["RTARCH", $ENV{FIGCONFIG_ENV}, 0]);      push(@$Env, ["RTARCH", $ENV{FIGCONFIG_ENV}, 0]);
184      push(@$Env, ["RTCURRENT", "`cat \$RTROOT/CURRENT_RELEASE`", 0]);      push(@$Env, ["RTCURRENT", "`cat \$RTROOT/CURRENT_RELEASE`", 0]);
185      push(@$Env, ["FIG_HOME", $ENV{FIG_HOME}, 0]);      push(@$Env, ["FIG_HOME", $ENV{FIG_HOME}, 0]);
# Line 181  Line 194 
194      #      #
195    
196      my @path = ();      my @path = ();
     push(@path, $env_bin);  
197      push(@path, $fig_bin);      push(@path, $fig_bin);
198        push(@path, $env_bin);
199      push(@path, "$fig_disk/bin");      push(@path, "$fig_disk/bin");
200    
201      push(@$Env, ["PATH", join(":", @path), 1]);      push(@$Env, ["PATH", join(":", @path), 1]);
202    
203      push(@$Env, ["LD_LIBRARY_PATH", "${env_lib}", 1]);      push(@$Env, ["LD_LIBRARY_PATH", "${env_lib}", 1]);
204    
205        my @perllib = grep({ $_ ne "." } @INC,
206                           $release_lib,
207                           "$release_lib/FigKernelPackages",
208                           "$fig_disk/config");
209    
210        push(@$Env, ["PERL5LIB", join(":", @perllib), 1]);
211  }  }
212    
213  sub configure_python  sub configure_python
# Line 210  Line 230 
230      chomp $py_version;      chomp $py_version;
231      print "Python version $py_version\n";      print "Python version $py_version\n";
232    
233      $OtherConfig->{python_site_path} = "$ENV{FIGCONFIG_ENV_DIR}/lib/python$py_version/site-packages";      #
234        # Python figures this out for us.
235        #$OtherConfig->{python_site_path} = "$ENV{FIGCONFIG_ENV_DIR}/lib/python$py_version/site-packages";
236    
237      my @path = ();      my @path = ();
238      push(@path, $OtherConfig->{python_site_path});      #push(@path, $OtherConfig->{python_site_path});
239      push(@path, "$release_lib");      push(@path, "$release_lib");
240      push(@path, "$fig_disk/config");      push(@path, "$fig_disk/config");
241      push(@$Env, ["PYTHONPATH", join(":", @path), 1]);      push(@$Env, ["PYTHONPATH", join(":", @path), 1]);
# Line 247  Line 269 
269      #      #
270      # Special case for the mac.      # Special case for the mac.
271      #      #
272        # RDO 20040603 - don't do this any more; we want to pick up
273        # the python we ship.
274        #
275    
276      if ($ENV{FIGCONFIG_ENV} eq "mac")      if (0 && $ENV{FIGCONFIG_ENV} eq "mac")
277      {      {
278          #          #
279          # We'd like to use the MacPython that is installed          # We'd like to use the MacPython that is installed
# Line 272  Line 297 
297      $python = "$ENV{FIGCONFIG_ENV_DIR}/bin/python";      $python = "$ENV{FIGCONFIG_ENV_DIR}/bin/python";
298      if (-x $python)      if (-x $python)
299      {      {
300            #
301            # The mac doesn't seem to like the long #! lines, so we'll use poundbang env.
302            #
303            if ($ENV{FIGCONFIG_ENV} =~ /^mac/)
304            {
305                $OtherConfig->{python_require_poundbang_env} = 1;
306            }
307          return $python;          return $python;
308      }      }
309    
# Line 324  Line 356 
356              print $fh "export $name\n";              print $fh "export $name\n";
357          }          }
358      }      }
359        print $fh "alias rtpath='source \$RTDIST/releases/\$RTCURRENT/ReleaseTools/RTPath.sh'\n";
360  }  }
361    
362  sub write_csh_init  sub write_csh_init
# Line 354  Line 387 
387          }          }
388      }      }
389    
390        #
391        # Alias for RT stuff.
392        #
393        print $fh "alias rtpath 'source \$RTDIST/releases/\$RTCURRENT/ReleaseTools/RTPath.csh'\n";
394  }  }
395    
396  sub run_script  sub run_script
# Line 534  Line 571 
571    
572      print $fh "use FIG_Config;\n";      print $fh "use FIG_Config;\n";
573      print $fh "\n";      print $fh "\n";
574        print $fh "#### END tool_hdr ####\n\n"
575  }  }
576    
577  sub write_tool_hdr_python  sub write_tool_hdr_python
# Line 552  Line 590 
590      }      }
591      print $fh "\n";      print $fh "\n";
592    
593      print $fh "import sys\n";      print $fh "import sys, os\n";
594    
595    
596      print $fh "sys.path.append('$OtherConfig->{python_site_path}')\n";      print $fh "sys.path.append('$OtherConfig->{python_site_path}')\n";
597    
598        #
599        # Append the perl path to the environment, for use later with CallPerl.
600        #
601    
602        my $perlpath = join(":", @INC, $release_lib, "$release_lib/FigKernelPackages", "$fig_disk/config");
603        print $fh <<END;
604    if os.getenv("PERL5LIB", "") != "":
605        _delim = ":"
606    else:
607        _delim = ""
608    os.environ["PERL5LIB"] = "$perlpath" + _delim + os.getenv("PERL5LIB", "")
609    
610    END
611    
612      print $fh "# Following block is expanded by switch_to_release to add use lib directives\n";      print $fh "# Following block is expanded by switch_to_release to add use lib directives\n";
613      print $fh "# to point at the correct locations in the release directory.\n";      print $fh "# to point at the correct locations in the release directory.\n";
614      print $fh "#BEGIN switch_to_release generated code\n";      print $fh "#BEGIN switch_to_release generated code\n";
# Line 567  Line 619 
619    
620      print $fh "import FIG_Config\n";      print $fh "import FIG_Config\n";
621      print $fh "\n";      print $fh "\n";
622        print $fh "#### END tool_hdr_py ####\n\n"
623    }
624    
625    sub write_rtconfig
626    {
627        my($fh) = @_;
628    
629        my $python = find_python();
630        my $perl = find_perl();
631    
632        print $fh "RTPYTHON=$python\n";
633        print $fh "RTPERL=$perl\n";
634        print $fh "RTPYTHONPATH=$OtherConfig->{pythonpath}\n";
635    
636        my %seen;
637        my @perlpath;
638        for (@INC, "$fig_disk/config")
639        {
640            next if $seen{$_};
641            push(@perlpath, $_);
642            $seen{$_}++;
643        }
644        my $perlpath = join(":", @perlpath);
645    
646        print $fh "RTPERL5LIB=$perlpath\n";
647    
648        print $fh "RTPYTHONIMPORTS=FIG_Config\n";
649        print $fh "RTPERLIMPORTS=FIG_Config\n";
650        print $fh "RTSETENV=BLASTMAT=$fig_disk/BLASTMAT\n";
651        print $fh "RTSETENV=FIG_HOME=$fig_disk\n";
652  }  }
653    
654  setup_directories("$fig_disk/bin",  setup_directories("$fig_disk/bin",
# Line 581  Line 663 
663  configure_std_fig_environment();  configure_std_fig_environment();
664  configure_python();  configure_python();
665  configure_environment_specific();  configure_environment_specific();
666    # configure_database();
667    
668  finalize_server_scripts();  finalize_server_scripts();
669    
# Line 619  Line 702 
702  write_tool_hdr_python(\*FH);  write_tool_hdr_python(\*FH);
703  close(FH);  close(FH);
704    
705    open(FH, ">$fig_disk/config/RTConfig") or die "Cannot write $fig_disk/config/RTConfig: $!";
706    write_rtconfig(\*FH);
707    close(FH);
708    
709  unshift(@INC, "$ENV{FIGCONFIG_RELEASE_DIR}");  unshift(@INC, "$ENV{FIGCONFIG_RELEASE_DIR}");
710    
711  require FigCommon::SwitchRelease;  require FigCommon::SwitchRelease;
712    
713    #
714    # We need to tweak the current path and PERL5LIB environment to get bootstrapping to
715    # work correctly.
716    #
717    
718    $ENV{PATH} = "$ENV{FIGCONFIG_ENVDIR}/bin:$ENV{PATH}";
719    
720    $ENV{PERL5LIB} = (map { $_->[1] } grep { $_->[0] eq "PERL5LIB"} @$Env)[0];
721    
722  &FigCommon::SwitchRelease::switch_to_release($fig_disk, $ENV{FIGCONFIG_ENV}, $ENV{FIGCONFIG_RELEASE});  &FigCommon::SwitchRelease::switch_to_release($fig_disk, $ENV{FIGCONFIG_ENV}, $ENV{FIGCONFIG_RELEASE});

Legend:
Removed from v.1.10  
changed lines
  Added in v.1.25

MCS Webmaster
ViewVC Help
Powered by ViewVC 1.0.3