--- doc/loncapafiles/loncapafiles.lpml	2004/06/05 14:46:12	1.359
+++ doc/loncapafiles/loncapafiles.lpml	2006/05/18 01:09:03	1.484
@@ -2,7 +2,7 @@
  "http://lpml.sourceforge.net/DTD/lpml.dtd">
 <!-- loncapafiles.lpml -->
 
-<!-- $Id: loncapafiles.lpml,v 1.359 2004/06/05 14:46:12 www Exp $ -->
+<!-- $Id: loncapafiles.lpml,v 1.484 2006/05/18 01:09:03 raeburn Exp $ -->
 
 <!--
 
@@ -39,7 +39,6 @@ http://www.lon-capa.org/
 <lpml>
 <specialnotices>
 <specialnotice dist='default'>
-!!! REDHAT 6.2 NOTICE !!!
 !!! Sometimes an incorrect /etc/hosts file is incorrectly generated !!!
 !!! This sometimes happens (bad): !!!
 !!! 127.0.0.1  computer1 localhost.localdomain localhost  !!!
@@ -47,22 +46,6 @@ http://www.lon-capa.org/
 !!! 127.0.0.1  localhost.localdomain  localhost !!!
 !!! 35.2.3.80  computer1 computer1.notreal.msu.edu !!!
 </specialnotice>
-<specialnotice dist='redhat7 redhat7.1'>
-!!!!!!!!!  REDHAT 7.*   NOTICE   !!!!!!!!!!!!!!!!!!!!
-!!!!!!!!!  LINE IN Cookie.pm     !!!!!!!!!!!!!!!!!!!!
-!!!!!!!!!  MUST BE REPLACED DUE  !!!!!!!!!!!!!!!!!!!!
-!!!!!!!!!  TO PERL 5.6.0 ERROR   !!!!!!!!!!!!!!!!!!!!
-!!!!!!!!!                        !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
-!!!! The offending line is in CGI/Cookie.pm                           !!
-!!!!                                                                  !!
-!!!! it should be changed from                                        !!
-!!!! $path   = CGI::url(-absolute=>1) unless defined $path;           !!
-!!!! to                                                               !!
-!!!! ($path = $ENV{'SCRIPT_NAME'})=~s![^/]+$!! unless $path;          !!
-!!!!                                                                  !!
-!!!! (This is just below the following line )                         !!
-!!!! # IE requires the path and domain to be present for some reason. !!
-</specialnotice>
 </specialnotices>
 <targetroot>/</targetroot>
 <sourceroot>/home/user/loncapa/</sourceroot>
@@ -336,6 +319,12 @@ echo '**********************************
   <description>perl scripts for managing the LON-CAPA system</description>
 </directory>
 <directory dist='default'>
+  <protectionlevel>modest_delete</protectionlevel>
+  <targetdir dist='default'>home/httpd/perl/debug</targetdir>
+  <categoryname>server readonly</categoryname>
+  <description>perl scripts for debugging the LON-CAPA system</description>
+</directory>
+<directory dist='default'>
   <protectionlevel>never_delete</protectionlevel>
   <targetdir dist='default'>home/httpd/perl/logs</targetdir>
   <categoryname>server standard</categoryname>
@@ -437,6 +426,12 @@ extensions</description>
 </directory>
 <directory dist='default'>
   <protectionlevel>never_delete</protectionlevel>
+  <targetdir dist='default'>home/httpd/cgi-bin/mimetexcache</targetdir>
+  <categoryname>server standard</categoryname>
+  <description>location of cgi scripts</description>
+</directory>
+<directory dist='default'>
+  <protectionlevel>never_delete</protectionlevel>
   <targetdir dist='default'>home/httpd/html</targetdir>
   <categoryname>server standard</categoryname>
   <description>location of web-accessible file tree</description>
@@ -521,6 +516,12 @@ extensions</description>
 </directory>
 <directory dist='default'>
   <protectionlevel>modest_delete</protectionlevel>
+  <targetdir dist='default'>home/httpd/html/adm/fonts</targetdir>
+  <categoryname>server readonly</categoryname>
+  <description>fonts</description>
+</directory>
+<directory dist='default'>
+  <protectionlevel>modest_delete</protectionlevel>
   <targetdir dist='default'>home/httpd/html/adm/help</targetdir>
   <categoryname>server readonly</categoryname>
   <description>online help documentation</description>
@@ -533,6 +534,36 @@ extensions</description>
 </directory>
 <directory dist='default'>
   <protectionlevel>modest_delete</protectionlevel>
+  <targetdir dist='default'>home/httpd/html/adm/jmol</targetdir>
+  <categoryname>server readonly</categoryname>
+  <description>Jmol files</description>
+</directory>
+<directory dist='default'>
+  <protectionlevel>modest_delete</protectionlevel>
+  <targetdir dist='default'>home/httpd/html/adm/jsMath</targetdir>
+  <categoryname>server readonly</categoryname>
+  <description>jsMath support files</description>
+</directory>
+<directory dist='default'>
+  <protectionlevel>modest_delete</protectionlevel>
+  <targetdir dist='default'>home/httpd/html/adm/jsMath/extensions</targetdir>
+  <categoryname>server readonly</categoryname>
+  <description>jsMath extension files</description>
+</directory>
+<directory dist='default'>
+  <protectionlevel>modest_delete</protectionlevel>
+  <targetdir dist='default'>home/httpd/html/adm/jsMath/uncompressed</targetdir>
+  <categoryname>server readonly</categoryname>
+  <description>jsMath files (uncompressed)</description>
+</directory>
+<directory dist='default'>
+  <protectionlevel>modest_delete</protectionlevel>
+  <targetdir dist='default'>home/httpd/html/adm/jsMath/plugins</targetdir>
+  <categoryname>server readonly</categoryname>
+  <description>jsMath plugin files</description>
+</directory>
+<directory dist='default'>
+  <protectionlevel>modest_delete</protectionlevel>
   <targetdir dist='default'>home/httpd/html/adm/helper</targetdir>
   <categoryname>server readonly</categoryname>
   <description>XML specifications for helpers</description>
@@ -624,6 +655,14 @@ roles.db) which specify the roles and pr
 LON-CAPA system.</description>
 </directory>
 <directory dist='default'>
+  <protectionlevel>never_delete</protectionlevel>
+  <targetdir dist='default'>home/httpd/lonCerts</targetdir>
+  <categoryname>server standard</categoryname>
+  <description>
+    Directory for Certificates for SSL and local auth modes
+  </description>
+</directory>
+<directory dist='default'>
   <protectionlevel>modest_delete</protectionlevel>
   <targetdir dist='default'>home/httpd/html/adm/MathML</targetdir>
   <categoryname>server readonly</categoryname>
@@ -887,7 +926,9 @@ Thesaurus database file to be built from
 loncom/thesaurus/build_thesaurus_wrapper.sh
 </build>
 <dependencies>
-rawkey.txt
+rawkey.txt;
+build_thesaurus_db.pl;
+build_thesaurus_wrapper.sh
 </dependencies>
 </file>
 <file>
@@ -1097,6 +1138,23 @@ Meta file for generic resource for DOCS
 </description>
 </file>
 <file>
+<source>loncom/homework/templates/DropBox.problem</source>
+<target dist='default'>home/httpd/html/res/lib/templates/DropBox.problem</target>
+<categoryname>interface file</categoryname>
+<description>
+Generic resource for DOCS "Drop Box"
+</description>
+</file>
+<file>
+<source>loncom/homework/templates/DropBox.problem.meta</source>
+<target dist='default'>home/httpd/html/res/lib/templates/DropBox.problem.meta</target>
+<categoryname>interface file</categoryname>
+<description>
+Meta file for generic resource for DOCS "Drop Box"
+</description>
+</file>
+
+<file>
 <source>loncom/homework/templates/examupload.problem</source>
 <target dist='default'>home/httpd/html/res/lib/templates/examupload.problem</target>
 <categoryname>interface file</categoryname>
@@ -1126,6 +1184,7 @@ dialog.js;
 htmlarea.js;
 popupdiv.js;
 popupwin.js;
+license.txt
 </filenames>
 </fileglob>
 <file>
@@ -1237,6 +1296,7 @@ fullscreen.html;
 old-fullscreen.html;
 select_color.html;
 popup.js;
+link.html;
 </filenames>
 </fileglob>
 <fileglob>
@@ -1349,7 +1409,11 @@ SimpleMatching.problem.meta;
 SimpleRank.problem;
 SimpleRank.problem.meta;
 SimpleTrueFalse.problem;
-SimpleTrueFalse.problem.meta
+SimpleTrueFalse.problem.meta;
+organic.problem;
+organic.problem.meta;
+reaction.problem;
+reaction.problem.meta
 </filenames>
 </fileglob>
 <file>
@@ -1417,6 +1481,14 @@ Descriptive list of abbreviations used i
 and privileges available in the network with function
 </description>
 </file>
+<file>
+<source>loncom/managers.tab</source>
+<target dist='default'>home/httpd/lonTabs/managers.tab</target>
+<categoryname>static conf</categoryname>
+<description>
+List of machines allowed to pass along updates to hosts.tab and domain.tab
+</description>
+</file>
 <file type="private">
 <source>loncom/hosts.tab</source>
 <target dist='default'>home/httpd/lonTabs/hosts.tab</target>
@@ -1506,6 +1578,14 @@ Batch script for removing temporary tabl
 </description>
 </file>
 <file>
+<source>loncom/metadata_database/parse_activity_log.pl</source>
+<target dist='default'>home/httpd/perl/parse_activity_log.pl</target>
+<categoryname>script</categoryname>
+<description>
+Batch script to copy activy logs from native format into the SQL metadata database.
+</description>
+</file>
+<file>
 <source>loncom/misc/cleanup_file_caches.pl</source>
 <target dist='default'>home/httpd/perl/cleanup_file_caches.pl</target>
 <categoryname>script</categoryname>
@@ -1524,6 +1604,15 @@ nohist_accesscount.db.
 </description>
 </file>
 <file>
+<source>loncom/debugging_tools/modify_config_files.pl</source>
+<target dist='default'>home/httpd/perl/modify_config_files.pl</target>
+<categoryname>script</categoryname>
+<description>
+Batch script to ensure certain LONCAPA configuration parameters for yum and
+MySQL are included in their configuration files.
+</description>
+</file>
+<file>
 <source>loncom/lonhttpd</source>
 <target dist='default'>home/httpd/perl/lonhttpd</target>
 <categoryname>script</categoryname>
@@ -1532,6 +1621,22 @@ Small fry httpd on port 8080
 </description>
 </file>
 <file>
+<source>loncom/lonmemcached</source>
+<target dist='default'>home/httpd/perl/lonmemcached</target>
+<categoryname>script</categoryname>
+<description>
+small script to handle the start up of the memcached daemon
+</description>
+</file>
+<file>
+    <source>loncom/request_ssl_key.sh</source>
+    <target dist='default'>home/httpd/lonCerts/request_ssl_key.sh</target>
+    <categoryname>script</categoryname>
+    <description>
+        Script that requests a Lon-CAPA ssl key.
+    </description>
+</file>
+<file>
 <source>loncom/lonc</source>
 <target dist='default'>home/httpd/perl/lonc</target>
 <categoryname>script</categoryname>
@@ -1614,10 +1719,19 @@ echo 'pod2html lond'
 </dependencies>
 </file>
 <file>
-<source>loncom/build/CHECKRPMS</source>
+<source dist='default'>loncom/build/CHECKRPMS.default</source>
+<source dist='fedora1 fedora2 fedora3 fedora4'>loncom/build/CHECKRPMS.fedora</source>
+<source dist='rhes4'>loncom/build/CHECKRPMS.rhel</source>
+<source dist='suse9.2 suse9.3 sles9'>loncom/build/CHECKRPMS.suse</source>
 <target dist='default'>home/httpd/cgi-bin/CHECKRPMS</target>
 <categoryname>script</categoryname>
 <description>CGI script that checks status of RPMs</description>
+<dependencies>
+loncom/build/CHECKRPMS.default;
+loncom/build/CHECKRPMS.fedora;
+loncom/build/CHECKRPMS.rhel;
+loncom/build/CHECKRPMS.suse;
+</dependencies>
 </file>
 <file>
 <source>loncom/cgi/loncron.pl</source>
@@ -1672,6 +1786,42 @@ echo 'pod2html lonsql'
 </dependencies>
 </file>
 <file>
+  <source>loncom/CrGrant.pl</source>
+  <target dist='default'>home/httpd/perl/CrGrant.pl</target>
+  <categoryname>script</categoryname>
+  <description>
+    Script used to verify and grant an SSL certificate to a Lon-CAPA host
+  </description>
+  <status>in progress</status>
+</file>
+<file>
+  <source>loncom/CrGenerate.pl</source>
+  <target dist='default'>home/httpd/perl/CrGenerate.pl</target>
+  <categoryname>script</categoryname>
+  <description>
+    Script used to request an SSL certificate for a Lon-CAPA host.
+  </description>
+  <status>in progress</status>
+</file>
+<file>
+  <source>loncom/lonManage</source>
+  <target dist='default'>home/httpd/perl/lonManage</target>
+  <categoryname>script</categoryname>
+  <description>
+    Script to push changes to hosts.tab and domain.tab out to Lon-CAPA servers
+  </description>
+  <status>works/unverified</status>
+</file>
+<file>
+  <source>loncom/apachereload</source>
+  <target dist='default'>home/httpd/perl/apachereload</target>
+  <categoryname>setuid script</categoryname>
+  <description>
+    Script to let www reload the webserver
+  </description>
+  <status>works/unverified</status>
+</file>
+<file>
 <source>loncom/lcpasswd</source>
 <target dist='default'>home/httpd/perl/lcpasswd</target>
 <categoryname>setuid script</categoryname>
@@ -1868,6 +2018,14 @@ Table which contains list of copyright p
 </description>
 </file>
 <file>
+<source>loncom/publisher/source_copyright.tab</source>
+<target dist='default'>home/httpd/html/res/adm/includes/source_copyright.tab</target>
+<categoryname>static conf</categoryname>
+<description>
+Table which contains list of source copyright possibilities for educational resources.
+</description>
+</file>
+<file>
 <source>loncom/publisher/language.tab</source>
 <target dist='default'>home/httpd/lonTabs/language.tab</target>
 <categoryname>static conf</categoryname>
@@ -1922,6 +2080,15 @@ Handler for periodically fetch new lines
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/interface/longroupchat.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/longroupchat.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Handler for generation of frameset for display of group chat
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>loncom/interface/lonannounce.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonannounce.pm</target>
 <categoryname>handler</categoryname>
@@ -1940,6 +2107,15 @@ Handler to put up syllabus
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/interface/lonrss.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonrss.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Handler for adding to and displaying RSS
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>loncom/homework/lonsimpleproblemedit.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonsimpleproblemedit.pm</target>
 <categoryname>handler</categoryname>
@@ -2055,6 +2231,15 @@ packages into construction space, or int
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/imspackages/imsexport.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/imsexport.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Routines used in londocs to export templated files to an IMS package.
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>loncom/interface/lonhelp.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonhelp.pm</target>
 <categoryname>handler</categoryname>
@@ -2079,6 +2264,14 @@ Index file for the help system
 </description>
 </file>
 <file>
+<source>loncom/html/adm/help/nohelptopic.html</source>
+<target dist='default'>home/httpd/html/adm/help/nohelptopic.html</target>
+<categoryname>interface file</categoryname>
+<description>
+Page of links to help manuals - displayed when inline help is missing for a specific topic.
+</description>
+</file>
+<file>
 <source>doc/help/author.manual.access.tex</source>
 <target dist='default'>home/httpd/html/adm/help/tex/author.manual.access.tex
 </target>
@@ -2158,6 +2351,54 @@ The PDF Course Manual
 </description>
 <status>works/unverified</status>
 </file>
+<file>
+  <source>loncom/html/adm/help/ext_examples.html</source>
+  <target dist='default'>home/httpd/html/adm/help/ext_examples.html</target>
+  <categoryname>interface file</categoryname>
+  <description>
+    Examples for using &EXT in HTML
+  </description>
+</file>
+<file>
+  <source>loncom/html/adm/help/ext_examples.html.meta</source>
+  <target dist='default'>home/httpd/html/adm/help/ext_examples.html.meta</target>
+  <categoryname>interface file</categoryname>
+  <description>
+    Examples for using &EXT in HTML metadata
+  </description>
+</file>
+<file>
+  <source>loncom/html/adm/help/ext_examples.library</source>
+  <target dist='default'>home/httpd/html/adm/help/ext_examples.library</target>
+  <categoryname>interface file</categoryname>
+  <description>
+    Examples for using &EXT library
+  </description>
+</file>
+<file>
+  <source>loncom/html/adm/help/ext_examples.library.meta</source>
+  <target dist='default'>home/httpd/html/adm/help/ext_examples.library.meta</target>
+  <categoryname>interface file</categoryname>
+  <description>
+    Examples for using &EXT library metadata
+  </description>
+</file>
+<file>
+  <source>loncom/html/adm/help/ext_examples.problem</source>
+  <target dist='default'>home/httpd/html/adm/help/ext_examples.problem</target>
+  <categoryname>interface file</categoryname>
+  <description>
+    Examples for using &EXT problem
+  </description>
+</file>
+<file>
+  <source>loncom/html/adm/help/ext_examples.problem.meta</source>
+  <target dist='default'>home/httpd/html/adm/help/ext_examples.problem.meta</target>
+  <categoryname>interface file</categoryname>
+  <description>
+    Examples for using &EXT problem metadata
+  </description>
+</file>
 <fileglob>
 <glob>*.*</glob>
 <sourcedir>loncom/html/adm/help/gif/</sourcedir>
@@ -2168,6 +2409,19 @@ home/httpd/html/adm/help/gif/</targetdir
 Gif files for the help system
 </description>
 <filenames>
+Authoring_Dynamic_Plot_Axis_Labels.gif;
+Authoring_Dynamic_Plot_Axis_Tics_border.gif;
+Authoring_Dynamic_Plot_Axis_Tics_minor.gif;
+Authoring_Dynamic_Plot_Axis_Tics_nomirror.gif;
+Authoring_Dynamic_Plot_Axis_Tics_x_axis.gif;
+Authoring_Dynamic_Plot_Title_X_Y_Label.gif;
+Dynamic_Replication_Change.gif;
+Dynamic_Replication_Request.gif;
+Load_Balance_Example.gif;
+LONCAPA_Network_Diagram2.gif;
+LONCAPA_Network_Diagram.gif;
+Map_Example.gif;
+Resource_Assembly.gif;
 authorRemote.gif;
 constructionSpace.gif;
 constructionSpaceForPublishing.gif;
@@ -2220,6 +2474,19 @@ home/httpd/html/adm/help/eps/</targetdir
 EPS files for the help system
 </description>
 <filenames>
+Authoring_Dynamic_Plot_Axis_Labels.eps;
+Authoring_Dynamic_Plot_Axis_Tics_border.eps;
+Authoring_Dynamic_Plot_Axis_Tics_minor.eps;
+Authoring_Dynamic_Plot_Axis_Tics_nomirror.eps;
+Authoring_Dynamic_Plot_Axis_Tics_x_axis.eps;
+Authoring_Dynamic_Plot_Title_X_Y_Label.eps;
+Dynamic_Replication_Change.eps;
+Dynamic_Replication_Request.eps;
+Load_Balance_Example.eps;
+LONCAPA_Network_Diagram2.eps;
+LONCAPA_Network_Diagram.eps;
+Map_Example.eps;
+Resource_Assembly.eps;
 authorRemote.eps;
 constructionSpace.eps;
 constructionSpaceForPublishing.eps;
@@ -2278,16 +2545,19 @@ About_Communication.tex;
 About_Developers_Manual.tex;
 About_Numerical_and_Formula_Response.tex;
 all_functions_table.tex;
+adaptive_hints.tex;
+Additional_Help.tex;
 Ambiguous_Reference.tex;
-Analysis_Analyze_as.tex;
 Analysis_Analyze_Over.tex;
-Analysis_num_plots.tex;
 Analyze_Problem.tex;
+Answer_Date.tex;
 Annotation.tex;
 Authentication.tex;
+Auth_Options.tex;
 Authoring_Adding_Pictures.tex;
 Authoring_DataResponse.tex;
 Authoring_Dynamic_Plot_Axes.tex;
+Authoring_Dynamic_Plot_Color_Selection.tex;
 Authoring_Dynamic_Plot_Curve_Data.tex;
 Authoring_Dynamic_Plot_Curve_Function.tex;
 Authoring_Dynamic_Plot_Curve.tex;
@@ -2323,6 +2593,7 @@ Author_Manual_Title_Page.tex;
 Author_Numerical_and_Formula.tex;
 Author_Remote_Control.tex;
 Bookmarks.tex;
+Browsing_Resources.tex;
 Bugzilla.tex;
 Caching.tex;
 Calendar_Add_Announcement.tex;
@@ -2330,16 +2601,23 @@ Calendar_Remove_Announcement.tex;
 Calling_Functions.tex;
 CAPA_LON-CAPA_function_diffs.tex;
 Cascading_Parameters.tex;
+Catalog_Info.tex;
 Change_Colors.tex;
 Change_Password.tex;
 Chart_Description.tex;
+Change_Discussion_Display.tex;
+Chart_Enrollment_Status.tex;
 Chart_Output_Data.tex;
 Chart_Output_Formats.tex;
+Chart_Sections.tex;
+Chart_Sequences.tex;
+Chart_Student_Data.tex;
 Chatting.tex;
 Coauthor.tex;
 Construction_Space_Overview.tex;
 Course_Add_Other.tex;
 Course_Add_Student.tex;
+Course_Automated_Enrollment.tex;
 Course_Broadcast_Message.tex;
 Course_Change_Privileges.tex;
 Course_Chart_To_Excel.tex;
@@ -2353,6 +2631,7 @@ Course_Discussion_Board.tex;
 Course_Drop_Student.tex;
 Course_Edit_Content.tex;
 Course_Editing_Custom_Roles.tex;
+Course_Environment.tex;
 Course_Extending_Due_Dates.tex;
 Course_Face_To_Face_Records.tex;
 Course_Feedback_Addresses.tex;
@@ -2363,6 +2642,7 @@ Course_Maximum_Collaborators.tex;
 Course_Message_Access.tex;
 Course_Modify_Student_Data.tex;
 Course_Parameter_Levels.tex;
+Course_Parameter_Table_Mode.tex;
 Course_Problem_Weight.tex;
 Course_Set_Start_End_Date.tex;
 Course_Setting_Parameters.tex;
@@ -2379,6 +2659,7 @@ Creating_Online_Problems.tex;
 Creating_Radio_Response_Problems.tex;
 Developer_Manual_Title_Page.tex;
 Developer_Tutorial.tex;
+Distribute_Messages.tex;
 Docs_About_Bulletin_Board.tex;
 Docs_About_My_Personal_Info.tex;
 Docs_About_Simple_Page.tex;
@@ -2386,18 +2667,38 @@ Docs_About_Syllabus.tex;
 Docs_Adding_Course_Doc.tex;
 Docs_Adding_External_Resource.tex;
 Docs_Adding_Folders.tex;
+Docs_Adding_Pages.tex;
 Docs_Adding_Syllabus.tex;
 Docs_Alternatives.tex;
+Docs_Check_Resource_Versions.tex;
 Docs_Creating_From_Template.tex;
+Docs_Dump_Course_Docs.tex;
+Docs_Export_Course_Docs.tex;
 Docs_Editing_Templated_Pages.tex;
+Docs_Essay.tex;
 Docs_Importing_LON-CAPA_Resource.tex;
 Docs_Load_Map.tex;
 Docs_Main_Course_Documents.tex;
 Docs_Navigate_Content.tex;
+Docs_Option_Response.tex;
 Docs_Overview.tex;
+Docs_Radio.tex;
 Docs_Score_Upload_Form.tex;
+Docs_Search.tex;
+Docs_Simple_Problem.tex;
+Docs_String_Response.tex;
 Docs_Supplemental.tex;
 Docs_Uploading_From_Harddrive.tex;
+Docs_Verify_Content.tex;
+Due_Date.tex;
+Edit_Syllabus.tex;
+exam_basics.tex;
+Exploring_Your_Course.tex;
+Feedback_Author.tex;
+Feedback_Content.tex;
+Feedback_Discuss_Anon.tex;
+Feedback_Discussion.tex;
+Feedback_Policy.tex;
 Finding_Resources.tex;
 Foils.tex;
 Formula_Response_Adv_Intro.tex;
@@ -2408,6 +2709,13 @@ Formula_Response_Sampling.tex;
 Formula_Tolerance.tex;
 General_Intro.tex;
 Generation.tex;
+Grade_All.tex;
+Grade_Intro.tex;
+Grade_One.tex;
+Grade_Scantron.tex;
+Grade_Sequence.tex;
+Grade_Upload.tex;
+Grade_Verify.tex;
 GradingOptions.tex;
 Greek_Symbols.tex;
 Guts_Apache_Env.tex;
@@ -2418,13 +2726,17 @@ Guts_Authoring.tex;
 Guts_Coding_Guidelines.tex;
 Guts_Course_Dir.tex;
 Guts_User_Dir.tex;
+Help.tex;
+Helper_Course_Initialization.tex;
 How_To_Edit_Existing_Content_Pages.tex;
 Latex_Footer.tex;
 Latex_Header.tex;
 Leaving_Feedback.tex;
 Login_To_LON-CAPA.tex;
 Metadata_Description.tex;
+Navigation_Screen.tex;
 Navmap_Host_Down.tex;
+NavMaps_MarkPosts_Read.tex;
 Numerical_Response_Advanced_Example.tex;
 Numerical_Response_Format.tex;
 Numerical_Response_Introduction.tex;
@@ -2436,6 +2748,8 @@ Numerical_Response_Randomization.tex;
 Numerical_Response_Simple_Example.tex;
 Numerical_Response_Tutorial_A.tex;
 Numerical_Response_Units.tex;
+numerical_wrong_answers.tex;
+Open_Date.tex;
 Option_Response_Concept_Group_Example.tex;
 Option_Response_Matching_Example.tex;
 Option_Response_Problem_Creation.tex;
@@ -2444,33 +2758,48 @@ Option_Response_Problem_Parts.tex;
 Option_Response_Problems.tex;
 Option_Response_Simple.tex;
 Other_Symbols.tex;
+Parameter_Helper.tex;
+Parameter_Overview.tex;
 Part_Tag_Edit_Help.tex;
 Personal_Info_Page.tex;
 Physical_Units.tex;
+Prefs_About_Me.tex;
 Prefs_Forwarding.tex;
+Prefs_Language.tex;
 Prefs_Screen_Name_Nickname.tex;
+Print_Library.tex;
+Print_Options.tex;
 Print_Resource.tex;
+Print_Tricks.tex;
 Problem_Editor_Testing_Area.tex;
 Problem_Editor_XML_Index.tex;
 Problem_LON-CAPA_Functions.tex;
+Problem_LON-CAPA_Image_Options.tex;
+Problem_Parameters.tex;
 Problem_Types.tex;
 Publishing_A_Resource.tex;
 Publishing_Author_Tutorial_Segue.tex;
 Publishing_Copyright.tex;
 Publishing_Intro.tex;
 Publishing_Keywords.tex;
+Quick_Grades_Description.tex;
 Quick_Grades_Possibly_Correct.tex;
 Radio_Response_Problems.tex;
 Radio_Response_Randomization.tex;
 Ranking_Problems.tex;
 Receipt.tex;
+Remote_Menu.tex;
 Resource_Discussion.tex;
 Resource_Types.tex;
 Roles_About.tex;
+Roles_Screen.tex;
 Script_Functions.tex;
 Scripting_Help.tex;
 Script_Tutorial_Intro.tex;
 Script_Variables.tex;
+Search_Advanced.tex;
+Search_Basic.tex;
+Searching.tex;
 Sending_Email.tex;
 Sequence_Advanced_Editor_Creation.tex;
 Sequence_Definition.tex;
@@ -2504,10 +2833,22 @@ Spreadsheet_Template_Row.tex;
 Spreadsheet_Ternary_Operator.tex;
 Spreadsheet_Tries.tex;
 Statistics_Overall_Key.tex;
+Statistics_Sequence.tex;
+Statistics_Cache.tex;
 String_Response_Problem_Creation.tex;
 String_Response_Problems.tex;
+Submission_Time_Analysis.tex;
 Syllabus_ExtLink.tex;
 Syllabus_URLs.tex;
+Table_Mode.tex;
+TEXDropEmptyColumns_attribute.tex;
+TEXitemgroupwidth_attribute.tex;
+TEXitemgroup_attribute.tex;
+TEXlayout_attribute.tex;
+TEXsize_attribute.tex;
+TEXtype_attribute.tex;
+TEXwidth_attribute.tex;
+Tries.tex;
 Tolerance.tex;
 Uploaded_Templates_PublicView.tex;
 Uploaded_Templates_TextBoxes.tex;
@@ -2516,6 +2857,8 @@ Variables_in_Scripts.tex;
 Variables_in_the_Answer_Block.tex;
 Variables_in_the_Text_Block.tex;
 Variable_Tutorial_A.tex;
+View_All_Messages.tex;
+View_Critical_Messages.tex;
 What_Is_LON-CAPA.tex;
 Why_LON-CAPA.tex;
 </filenames>
@@ -2535,6 +2878,7 @@ About_Communication.tex;
 About_Developers_Manual.tex;
 About_Numerical_and_Formula_Response.tex;
 CAPA_LON-CAPA_function_diffs.tex;
+Course_Maximum_Collaborators.tex;
 Course_Set_Start_End_Date.tex;
 Creating_A_Course_Intro.tex;
 Other_Symbols.tex;
@@ -2552,6 +2896,25 @@ A gdbm file containing a label->tex file
 </description>
 <status>works/unverified</status>
 </file>
+<fileglob>
+  <glob>*</glob>
+  <sourcedir>loncom/html/adm/fonts/</sourcedir>
+  <targetdir dist='default'>home/httpd/html/adm/fonts/</targetdir>
+  <categoryname>interface file</categoryname>
+  <description>
+    Fonts for convertjme.pl
+  </description>
+  <filenames>
+AUTHORS;
+BUGS;
+DejaVuSerif-Roman.ttf;
+LICENSE;
+NEWS;
+README;
+status.txt;
+unicover.txt
+  </filenames>
+</fileglob>
 <file>
 <source>loncom/interface/lonstatistics.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonstatistics.pm</target>
@@ -2564,13 +2927,22 @@ Handler to show statistics on solving LO
 <file>
 <source>loncom/interface/statistics/lonstathelpers.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonstathelpers.pm</target>
-<categoryname>module</categoryname>
+<categoryname>handler</categoryname>
 <description>
 Utility module for statistics and data mining.
 </description>
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/interface/lontrackstudent.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lontrackstudent.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Handler to parse and analyze activity.log
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>loncom/interface/statistics/lonproblemstatistics.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonproblemstatistics.pm
 </target>
@@ -2580,6 +2952,15 @@ The module that generate the html for th
 </description>
 </file>
 <file>
+<source>loncom/interface/statistics/lonsurveyreports.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonsurveyreports.pm
+</target>
+<categoryname>handler</categoryname>
+<description>
+Gives instructors access to compiled survey results.
+</description>
+</file>
+<file>
 <source>loncom/interface/statistics/lonstudentsubmissions.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonstudentsubmissions.pm
 </target>
@@ -2619,6 +3000,15 @@ This module provides detailed analysis a
 <status>works/unverified</status>
 </file>
 <file>
+  <source>loncom/interface/statistics/longradinganalysis.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/longradinganalysis.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+    This module provides detailed analysis and raw data for submissions of various problem types.
+  </description>
+  <status>works/unverified</status>
+</file>
+<file>
 <source>loncom/interface/statistics/lonsubmissiontimeanalysis.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonsubmissiontimeanalysis.pm
 </target>
@@ -2639,6 +3029,16 @@ The module that generate the html for th
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/interface/lonwhatsnew.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonwhatsnew.pm
+</target>
+<categoryname>handler</categoryname>
+<description>
+Handler to display items in course requiring action.
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>loncom/publisher/londiff.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/londiff.pm</target>
 <categoryname>handler</categoryname>
@@ -2724,6 +3124,15 @@ tag handlers needed by externalresponse.
 <status>works/unverified</status>
 </file>
 <file>
+  <source>loncom/homework/gradesubmission.pl</source>
+  <target dist='default'>home/httpd/cgi-bin/gradesubmission.pl</target>
+  <categoryname>handler</categoryname>
+  <description>
+Example script for use with external response.
+  </description>
+  <status>works/unverified</status>
+</file>
+<file>
 <source>loncom/publisher/lonpubdir.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonpubdir.pm</target>
 <categoryname>handler</categoryname>
@@ -2779,6 +3188,15 @@ Handler to retrieve old versions from re
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/publisher/loncleanup.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/loncleanup.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Handler to clean up HTML files.
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>doc/man/Apache__lonretrieve.3</source>
 <target dist='default'>usr/man/man3/Apache::lonretrieve.3</target>
 <categoryname>doc</categoryname>
@@ -2910,6 +3328,14 @@ Contains a set of functions that generat
 </description>
 </file>
 <file>
+<source>loncom/interface/lonspeller.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonspeller.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Contains a set of functions to use Aspell
+</description>
+</file>
+<file>
 <source>loncom/localize/lonlocal.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonlocal.pm</target>
 <categoryname>handler</categoryname>
@@ -2918,6 +3344,14 @@ Contains the &mt access function to Loca
 </description>
 </file>
 <file>
+  <source>loncom/localize/lonlocalize.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/lonlocalize.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+handler for &mt()ing static files
+  </description>
+</file>
+<file>
 <source>loncom/localize/localize.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/localize.pm</target>
 <categoryname>handler</categoryname>
@@ -2944,6 +3378,7 @@ ru.pm;
 fa.pm;
 ar.pm;
 es.pm;
+x_chef.pm;
 </filenames>
 </fileglob>
 <file>
@@ -3054,6 +3489,23 @@ smiles.gif
   </filenames>
 </fileglob>
 
+<fileglob>
+  <glob>*.*</glob>
+  <sourcedir>loncom/html/adm/jmol/</sourcedir>
+  <targetdir dist='default'>home/httpd/html/adm/jmol/</targetdir>
+  <categoryname>interface file</categoryname>
+  <description>
+    Jmol files, for displaying structures
+  </description>
+  <filenames>
+COPYRIGHT.txt;
+JmolApplet.jar;
+Jmol.js;
+LICENSE.txt;
+README.txt
+  </filenames>
+</fileglob>
+
 <file>
   <source>loncom/homework/convertjme.pl</source>
   <target dist='default'>home/httpd/cgi-bin/convertjme.pl</target>
@@ -3063,6 +3515,119 @@ smiles.gif
   </description>
 </file>
 
+<fileglob>
+  <glob>*.*</glob>
+  <sourcedir>loncom/html/adm/jsMath/</sourcedir>
+  <targetdir dist='default'>home/httpd/html/adm/jsMath/</targetdir>
+  <categoryname>interface file</categoryname>
+  <description>
+jsMath is a Javascript solution to converting TeX to something the browser can see
+  </description>
+  <filenames>
+black.gif;
+blank.gif;
+COPYING.txt;
+jsMath-BaKoMa-fonts.js;
+jsMath-autoload.html;
+jsMath-controls.html;
+jsMath-fallback-mac.js;
+jsMath-fallback-mac-mozilla.js;
+jsMath-fallback-mac-msie.js;
+jsMath-fallback-pc.js;
+jsMath-fallback-symbols.js;
+jsMath-fallback-unix.js;
+jsMath-global-controls.html;
+jsMath-global.html;
+jsMath.js;
+jsMath-loader.html;
+jsMath-loader-omniweb4.js;
+jsMath-mozilla.js;
+jsMath-msie-mac.js;
+jsMath-old-browsers.js;
+  </filenames>
+</fileglob>
+
+<file>
+  <source>loncom/html/adm/jsMath/jsMath-fonts-1.3.zip</source>
+  <target dist='default'>home/httpd/html/adm/jsMath/fonts/</target>
+  <categoryname>script</categoryname>
+  <description>
+    Dynamically converts JME strings into either a png or ps file.
+  </description>
+  <installscript>
+commands /home/httpd/html/adm/jsMath
+  </installscript>
+  <dependencies>
+loncom/html/adm/jsMath/commands;
+loncom/html/adm/jsMath/jsMath-fonts-1.3.zip;
+  </dependencies>
+</file>
+
+<fileglob>
+  <glob>*.*</glob>
+  <sourcedir>loncom/html/adm/jsMath/extensions/</sourcedir>
+  <targetdir dist='default'>home/httpd/html/adm/jsMath/extensions/</targetdir>
+  <categoryname>interface file</categoryname>
+  <description>
+Additional jsMath functionality that can be used when needed.
+  </description>
+  <filenames>
+AMSsymbols.js;
+HTML.js;
+bbox.js;
+font.js;
+boldsymbol.js;
+double-click.js;
+fbox.js;
+leaders.js;
+mathchoice.js;
+mimeTeX.js;
+moreArrows.js;
+newcommand.js;
+underset-overset.js;
+  </filenames>
+</fileglob>
+
+<fileglob>
+  <glob>*.*</glob>
+  <sourcedir>loncom/html/adm/jsMath/plugins/</sourcedir>
+  <targetdir dist='default'>home/httpd/html/adm/jsMath/plugins/</targetdir>
+  <categoryname>interface file</categoryname>
+  <description>
+jsMath is a Javascript solution to converting TeX to something the browser can see
+  </description>
+  <filenames>
+autoload.js;
+CHMmode.js;
+global.js;
+mimeTeX.js;
+noCache.js;
+noGlobal.js;
+noImageFonts.js;
+spriteImageFonts.js;
+tex2math.js;
+  </filenames>
+</fileglob>
+
+<fileglob>
+  <glob>*.*</glob>
+  <sourcedir>loncom/html/adm/jsMath/uncompressed/</sourcedir>
+  <targetdir dist='default'>home/httpd/html/adm/jsMath/uncompressed/</targetdir>
+  <categoryname>interface file</categoryname>
+  <description>
+the jsMath source files not compressed for increasing download speed (not used by lon-capa directly)
+  </description>
+  <filenames>
+def.js;
+font.js;
+jsMath-fallback-mac.js;
+jsMath-fallback-pc.js;
+jsMath-fallback-symbols.js;
+jsMath-fallback-unix.js;
+jsMath.js;
+  </filenames>
+</fileglob>
+
 <file>
 <source>loncom/interface/lontest.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lontest.pm</target>
@@ -3083,15 +3648,6 @@ Handles multiple-choice style responses.
 <status>works/unverified</status>
 </file>
 <file>
-<source>loncom/interface/lonassignments.pm</source>
-<target dist='default'>home/httpd/lib/perl/Apache/lonassignments.pm</target>
-<categoryname>handler</categoryname>
-<description>
-Handles processing of assignments.
-</description>
-<status>works/unverified</status>
-</file>
-<file>
 <source>loncom/interface/loncommunicate.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/loncommunicate.pm</target>
 <categoryname>handler</categoryname>
@@ -3172,6 +3728,15 @@ echo 'pod2html lonnavmaps.pm'
 </dependencies>
 </file>
 <file>
+<source>loncom/interface/lonselstudent.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonselstudent.pm</target>
+<categoryname>standard</categoryname>
+<description>
+re-usable student selection subs.
+</description>
+<status>testing/unverified</status>
+</file>
+<file>
 <source>loncom/interface/lonhelper.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonhelper.pm</target>
 <categoryname>handler</categoryname>
@@ -3199,6 +3764,24 @@ Course initialization helper.
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/html/adm/helper/resettimes.helper</source>
+<target dist='default'>home/httpd/html/adm/helper/resettimes.helper</target>
+<categoryname>handler</categoryname>
+<description>
+Helper to resetting a student's first access time.
+</description>
+<status>works/unverified</status>
+</file>
+<file>
+  <source>loncom/html/adm/helper/newslot.helper</source>
+  <target dist='default'>home/httpd/html/adm/helper/newslot.helper</target>
+  <categoryname>handler</categoryname>
+  <description>
+Slot creation and editing helper.
+  </description>
+  <status>works/unverified</status>
+</file>
+<file>
 <source>loncom/interface/lonquickgrades.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonquickgrades.pm</target>
 <categoryname>handler</categoryname>
@@ -3304,6 +3887,34 @@ role of student in a course, and add the
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/interface/lonviewclasslist.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonviewclasslist.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Allows users (including students) to view the classlist of their course.
+</description>
+<status>works/unverified</status>
+</file>
+<file>
+<source>loncom/interface/loncoursegroups.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/loncoursegroups.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Allows course coordinators to create groups, modify existing groups (including    
+adding, expiring or deleting group members, or modifying group member privileges.
+</description>
+<status>works/unverified</status>
+</file>
+<file>
+<source>loncom/interface/longroup.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/longroup.pm</target>
+<categoryname>handler</categoryname>
+<description>
+General routines used to gather information about courses in a group, and their settings, and also to perform auto-group adds/drops when a user's role assignment changes.    
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>loncom/interface/lonmsg.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonmsg.pm</target>
 <categoryname>handler</categoryname>
@@ -3313,12 +3924,20 @@ author_res_msg - send message to resourc
 user_crit_msg - send a critical message to a user. A critical message
 will require acknowledgment by the recipient and the sender will be notified.
 user_crit_received - routine to trigger acknowledgment.
-statuschange - change the status of a message (read, replied, forwarded, etc).
-The handler also displays messages, has routines to reply, etc.
 </description>
 <status>works/unverified</status>
 </file>
 <file>
+  <source>loncom/interface/lonmsgdisplay.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/lonmsgdisplay.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+statuschange - change the status of a message (read, replied, forwarded, etc).
+The handler displays messages, has routines to reply, etc.
+  </description>
+  <status>works/unverified</status>
+</file>
+<file>
 <source>loncom/homework/hint.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/hint.pm</target>
 <categoryname>handler</categoryname>
@@ -3380,7 +3999,16 @@ Defines the specifics of the assessment
 <target dist='default'>home/httpd/lib/perl/Apache/lonparmset.pm</target>
 <categoryname>handler</categoryname>
 <description>
-Handler to resolve ambiguous file locations
+Handler for setting and modifying both course preferences and coure parameters
+</description>
+<status>works/unverified</status>
+</file>
+<file>
+<source>loncom/interface/slotrequest.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/slotrequest.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Handler for students to add access slots
 </description>
 <status>works/unverified</status>
 </file>
@@ -3474,15 +4102,33 @@ Has routines which control the remote co
 <status>works/unverified</status>
 </file>
 <file>
+  <source>loncom/interface/lonmainmenu.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/lonmainmenu.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+Displays the Main menu
+  </description>
+  <status>works/unverified</status>
+</file>
+<file>
 <source>loncom/interface/lonremote.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonremote.pm</target>
 <categoryname>handler</categoryname>
 <description>
-Handler to lauch and collapse the remote control.
+Handler to launch and collapse the remote control.
 </description>
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/interface/portfolio.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/portfolio.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Handler to manage user portfolios
+</description>
+<status>unverified</status>
+</file>
+<file>
 <source>rat/lonpageflip.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonpageflip.pm</target>
 <categoryname>handler</categoryname>
@@ -3499,6 +4145,15 @@ Builds up frame set and loads in the rig
 <status>works/unverified</status>
 </file>
 <file>
+<source>rat/lonratmenu.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonratmenu.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Creates horizontal menubar in advanced RAT
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>loncom/html/res/adm/pages/homeworkmenu.html</source>
 <target dist='default'>home/httpd/html/res/adm/pages/homeworkmenu.html</target>
 <categoryname>handler</categoryname>
@@ -3784,6 +4439,15 @@ resources
 <status>works/unverified</status>
 </file>
 <file>
+  <source>loncom/homework/bridgetask.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/bridgetask.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+implements the tags for supporting bridge tasks
+  </description>
+  <status>works/unverified</status>
+</file>
+<file>
 <source>loncom/homework/response.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/response.pm</target>
 <categoryname>handler</categoryname>
@@ -3921,6 +4585,15 @@ Encryption and decryption of URIs
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/lonencurl.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonencurl.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Handler that takes care of decrypting request URL's
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>doc/man/Apache__lonracc.3</source>
 <target dist='default'>usr/man/man3/Apache::lonracc.3</target>
 <categoryname>doc</categoryname>
@@ -4018,6 +4691,13 @@ loncom/build/pod2html.sh ../auth/loncacc
 <status>works/unverified</status>
 </file>
 <file>
+  <source>loncom/auth/publiccheck.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/publiccheck.pm</target>
+  <categoryname>handler</categoryname>
+  <description>Checks if resource is public and allows unauthenticated access if it is.</description>
+  <status>works/unverified</status>
+</file>
+<file>
 <source>loncom/auth/lonlogout.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonlogout.pm</target>
 <categoryname>handler</categoryname>
@@ -4025,6 +4705,34 @@ loncom/build/pod2html.sh ../auth/loncacc
 <status>works/unverified</status>
 </file>
 <file>
+  <source>loncom/auth/migrateuser.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/migrateuser.pm</target>
+  <categoryname>handler</categoryname>
+  <description>auto logsin a remote user</description>
+  <status>works/unverified</status>
+</file>
+<file>
+  <source>loncom/auth/switchserver.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/switchserver.pm</target>
+  <categoryname>handler</categoryname>
+  <description>Setups the transfer of a user between servers</description>
+  <status>works/unverified</status>
+</file>
+<file>
+  <source>loncom/auth/checkauthen.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/checkauthen.pm</target>
+  <categoryname>handler</categoryname>
+  <description>Checks if a user's cookie exists and is valid</description>
+  <status>works/unverified</status>
+</file>
+<file>
+  <source>loncom/auth/simpleauthen.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/simpleauthen.pm</target>
+  <categoryname>handler</categoryname>
+  <description>Always returns DENIED</description>
+  <status>works/unverified</status>
+</file>
+<file>
 <source>loncom/lonnet/perl/lonrep.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonrep.pm</target>
 <categoryname>handler</categoryname>
@@ -4080,6 +4788,15 @@ loncom/build/pod2html.sh ../auth/lonrole
 </dependencies>
 </file>
 <file>
+<source>loncom/interface/lonsource.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonsource.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Problem source code viewer
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>loncom/interface/lonindexer.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonindexer.pm</target>
 <categoryname>handler</categoryname>
@@ -4193,12 +4910,12 @@ loncom/build/pod2html.sh ../lonnet/perl/
 <categoryname>interface file</categoryname>
 <description>Bookmark and tab icon</description>
 </file>
-<link>
-<linkto>etc/mime.types</linkto>
+<file>
+<source>loncom/mime.types</source>
 <target dist='default'>etc/httpd/conf/mime.types</target>
-<categoryname>symbolic link</categoryname>
-<description>symbolic link to /etc/mime.types</description>
-</link>
+<categoryname>www static conf</categoryname>
+<description>Expaned mime.types</description>
+</file>
 <link>
 <linkto>home/httpd/html/res</linkto>
 <target dist='default'>home/httpd/html/raw</target>
@@ -4248,11 +4965,11 @@ Parameter input window.
 </description>
 </file>
 <file>
-<source>rat/client/code.html</source>
-<target dist='default'>home/httpd/html/adm/rat/code.html</target>
+<source>rat/client/ratcode.js</source>
+<target dist='default'>home/httpd/html/res/adm/includes/ratcode.js</target>
 <categoryname>interface file</categoryname>
 <description>
-javascript
+javascript for horizontal menubar in RAT
 </description>
 </file>
 <file>
@@ -4429,7 +5146,8 @@ lonlogo_broken.gif;
 lonlogo_broken_tsp.gif;
 lonlogo_broken.eps;
 lonlogo_broken.jpg;
-lonlogo_broken.mov
+lonlogo_broken.mov;
+genericstudent_tn.gif
 </filenames>
 </fileglob>
 <fileglob>
@@ -4450,6 +5168,7 @@ accessbutton_pt.gif;
 accessbutton_de.gif;
 angry.gif;
 arrow_up.gif;
+baeh.gif;
 bigsmile.gif;
 branch.gif;
 cab.gif;
@@ -4458,6 +5177,7 @@ capapanel.gif;
 check.gif;
 class.gif;
 class_big.gif;
+closepage.gif;
 coolindiff.gif;
 coolsmile.gif;
 cry.gif;
@@ -4483,6 +5203,9 @@ frowny.gif;
 gif.gif;
 gif_big.gif;
 header.gif;
+header.png;
+helpdesk.gif;
+helpgateway.gif;
 hrrm.gif;
 htm.gif;
 html.gif;
@@ -4508,6 +5231,8 @@ lonlogo.gif;
 lonlogos.gif;
 lowerleft.gif;
 lowerright.gif;
+mailbkgrd.gif;
+mailto.gif;
 minilogo.gif;
 meta.gif;
 meta_big.gif;
@@ -4516,6 +5241,7 @@ mov_big.gif;
 move_up.gif;
 move_down.gif;
 navmap.correct.gif;
+navmap.partial.gif;
 navmap.ellipsis.gif;
 navmap.open.gif;
 navmap.page.open.gif;
@@ -4558,6 +5284,8 @@ srvhalf.gif;
 srvnull.gif;
 survey.gif;
 survey_big.gif;
+task.gif;
+task_big.gif;
 tex.gif;
 tex_big.gif;
 tth.gif;
@@ -4604,6 +5332,7 @@ Miscellaneous resources.
 </description>
 <filenames>
 authorfeed.gif;
+blackdot.gif;
 bomb.gif;
 smallFAQ.gif;
 smallBug.gif;
@@ -4617,8 +5346,16 @@ subm_button.gif
 </filenames>
 </fileglob>
 <file>
+<source>loncom/xml/algebra/AlgParser.pm</source>
+<target dist='default'>home/httpd/lib/perl/AlgParser.pm</target>
+<categoryname>system file</categoryname>
+<description>
+perl module for invoking functions specific to Algebra-to-TeX-to-HTML conversion
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>modules/TexConvert/tthperl/tth.pm</source>
-<target dist='redhat7 redhat7.1'>usr/lib/perl5/site_perl/5.6.0/tth.pm</target>
 <target dist='default'>home/httpd/lib/perl/tth.pm</target>
 <categoryname>system file</categoryname>
 <description>
@@ -4643,6 +5380,24 @@ tested
 <status>works/unverified</status>
 </file>
 <file>
+  <source>loncom/lonlocal.pm</source>
+  <target dist='default'>home/httpd/lib/perl/LONCAPA/lonlocal.pm</target>
+  <categoryname>system file</categoryname>
+  <description>
+     lonc/d handler for doing a local filesystem based init:
+  </description>
+  <status>works/verified</status>
+</file>
+<file>
+  <source>loncom/lonssl.pm</source>
+  <target dist='default'>home/httpd/lib/perl/LONCAPA/lonssl.pm</target>
+  <categoryname>system file</categoryname>
+  <description>
+     lonc/d handler for doing a remote SSL based init:
+  </description>
+  <status>works/verified</status>
+</file>
+<file>
   <source>loncom/LondConnection.pm</source>
   <target dist='default'>home/httpd/lib/perl/LONCAPA/LondConnection.pm</target>
   <categoryname>system file</categoryname>
@@ -4720,7 +5475,6 @@ Configuration file editing module
 </file>
 <file>
 <source>modules/TexConvert/tthperl/tth.so</source>
-<target dist='redhat7 redhat7.1'>usr/lib/perl5/site_perl/5.6.0/tth.so</target>
 <target dist='default'>home/httpd/lib/perl/tth.so</target>
 <categoryname>system file</categoryname>
 <description>
@@ -4732,18 +5486,18 @@ CVS users.  (You can safely rely on the
 present on your system... don't worry about warnings
 related to this file during the build process.)
 </note>
-<build trigger='run if dependencies change'>
+<build trigger='always run'>
 modules/TexConvert/tthperl/commands
 </build>
 <status>works/unverified</status>
-<privatedependencies>
-../tthdynamic/tthfunc.c;
-../ttmdynamic/ttmfunc.c
-</privatedependencies>
+<dependencies>
+commands;
+compiles/tth.so.i386;
+compiles/tth.so.x86_64
+</dependencies>
 </file>
 <file>
 <source>loncom/homework/caparesponse/capa.pm</source>
-<target dist='redhat7 redhat7.1'>usr/lib/perl5/site_perl/5.6.0/capa.pm</target>
 <target dist='default'>home/httpd/lib/perl/capa.pm</target>
 <categoryname>system file</categoryname>
 <description>
@@ -4758,7 +5512,6 @@ the build process however.
 </file>
 <file>
 <source>loncom/homework/caparesponse/capa.bs</source>
-<target dist='redhat7 redhat7.1'>usr/lib/perl5/site_perl/5.6.0/capa.bs</target>
 <target dist='default'>home/httpd/lib/perl/capa.bs</target>
 <categoryname>system file</categoryname>
 <description>
@@ -4774,7 +5527,6 @@ the build process however.
 </file>
 <file>
 <source>loncom/homework/caparesponse/capa.so</source>
-<target dist='redhat7 redhat7.1'>usr/lib/perl5/site_perl/5.6.0/capa.so</target>
 <target dist='default'>home/httpd/lib/perl/capa.so</target>
 <categoryname>system file</categoryname>
 <description>
@@ -4815,6 +5567,28 @@ commands;
 ../../../CAPA/pProj/lex_debug.h
 </dependencies>
 </file>
+<file>
+<source>loncom/cgi/mimeTeX/mimetex.cgi</source>
+<target dist='default'>home/httpd/cgi-bin/mimetex.cgi</target>
+<categoryname>script</categoryname>
+<description>
+cgi binary for doing TeX -> math translation
+</description>
+<build trigger='always run'>
+loncom/cgi/mimeTeX/commands
+</build>
+<dependencies>
+commands;
+gfuntype.c;
+gifsave.c;
+mimetex.c;
+mimetex.h;
+mimetex.html;
+README;
+texfonts.h;
+LICENSE;
+</dependencies>
+</file>
 <fileglob>
 <glob>*.ent</glob>
 <sourcedir>loncom/MathML/</sourcedir>
@@ -4896,6 +5670,23 @@ Provides many functions for the &lt;scri
 Functions are documented in CVS:loncapa/doc/homework/homework5.html.
 </description>
 </file>
+
+<file>
+  <source>loncom/homework/task.css</source>
+  <target dist='default'>home/httpd/html/res/adm/includes/task.css</target>
+  <categoryname>handler</categoryname>
+  <description>
+    Style definitions for task display
+  </description>
+</file>
+<file>
+  <source>loncom/homework/task_grading.js</source>
+  <target dist='default'>home/httpd/html/res/adm/includes/task_grading.js</target>
+  <categoryname>handler</categoryname>
+  <description>
+    Javascript to make the grading screen of task easier to use
+  </description>
+</file>
 <file>
 <source>loncom/homework/capa.units</source>
 <target dist='default'>home/httpd/html/res/adm/includes/capa.units</target>
@@ -4926,6 +5717,11 @@ student.jpg;
 <description>Logos of LON-CAPA domains (jpg)</description>
 <filenames>
 headermsu.jpg;
+headertccfl.jpg;
+header_fsu.jpg;
+header_fsuK12.jpg;
+headerhope.jpg;
+jmsbanner.jpg;
 </filenames>
 </fileglob>
 <fileglob>
@@ -4958,8 +5754,12 @@ unihalle.gif;
 wscc.gif;
 cps.gif;
 fsu.gif;
+fsuK12.gif;
+hope.gif;
+vcu.gif;
 lsd.gif;
 msu.gif;
+jms.gif;
 nsdl.gif;
 pmm.gif;
 sunysb.gif;
@@ -4969,21 +5769,34 @@ fvl.gif;
 csm.gif;
 nau.gif;
 nagoya.gif;
+kanazawa.gif;
+colorado.gif;
 acadiau.gif;
 psuerie.gif;
 redford.gif;
 huji.gif;
 ifusp.gif;
 ucsc.gif;
+uiuc.gif;
+uiucheader.gif;
+koinonia.gif;
 waverly.gif;
 cmich.gif;
 UNICAMP.gif;
+lakefenton.gif;
+grandblanc.gif;
 glps.gif;
 BCHS.gif;
 headersfu.gif;
 uwsp.gif;
+tccfl.gif;
 bsu.gif;
 wmston.gif;
+headerharvard.gif;
+harvard.gif;
+uga.gif;
+headeruga.gif;
+covenantchristianhs.gif;
 </filenames>
 </fileglob>
 <fileglob>
@@ -5000,17 +5813,31 @@ csm.tab;
 huji.tab;
 nau.tab;
 nagoya.tab;
+koinonia.tab;
+kanazawa.tab;
+colorado.tab;
 acadiau.tab;
 psuerie.tab;
 redford.tab;
 cmich.tab;
 ifusp.tab;
+jms.tab;
 ucsc.tab;
+uiuc.tab;
 UNICAMP.tab;
+lakefenton.tab;
+grandblanc.tab;
 fsu.tab;
+fsuK12.tab;
+hope.tab;
+vcu.tab;
 sfu.tab;
 wmston.tab;
 worf.tab;
+tccfl.tab;
+harvard.tab;
+uga.tab;
+tmcc.tab;
 </filenames>
 </fileglob>
 <fileglob>
@@ -5133,10 +5960,12 @@ catalog.gif;
 ccrs.gif;
 chat.gif;
 chrt.gif;
+clst.gif;
 com.gif;
 courses.gif;
 cprv.gif;
 cstr.gif;
+del.gif;
 dempty.gif;
 docs.gif;
 egrd.gif;
@@ -5147,6 +5976,7 @@ fdbk.gif;
 feedback.gif;
 forw.gif;
 grds.gif;
+grps.gif;
 group.gif;
 help.gif;
 info.gif;
@@ -5156,24 +5986,31 @@ ledgreen.gif;
 ledoff.gif;
 ledon.gif;
 ledsend.gif;
+list.gif;
 logout.gif;
+mail.gif;
 mcrs.gif;
 mrk.gif;
 nav.gif;
+new.gif;
 next.gif;
 nothumb.gif;
 parm.gif;
 pgrd.gif;
+port.gif;
 pparm.gif;
 pref.gif;
 prev.gif;
 prt.gif;
+pub.gif;
 qempty.gif;
 reload.gif;
 remotebg.gif;
 res.gif;
 roles.gif;
+rtrv.gif;
 sbkm.gif;
+sctr.gif;
 spacer.gif;
 sprs.gif;
 src.gif;
@@ -5184,6 +6021,14 @@ vbkm.gif;
 </filenames>
 </fileglob>
 <file>
+<source>loncom/html/res/adm/pages/math_example.tex</source>
+<target dist='default'>home/httpd/html/res/adm/pages/math_example.tex</target>
+<categoryname>interface file</categoryname>
+<description>
+ file with an example math equation in it.
+</description>
+</file>
+<file>
 <source>loncom/html/res/adm/pages/imgmaps.html</source>
 <target dist='default'>home/httpd/html/res/adm/pages/imgmaps.html</target>
 <categoryname>interface file</categoryname>
@@ -5384,7 +6229,8 @@ javascript for handling client-side inte
 </description>
 </file>
 <file>
-<source>loncom/build/CHECKRPMS</source>
+<source dist='default'>loncom/build/CHECKRPMS.default</source>
+<source dist='fedora1 fedora2 fedora3 fedora4'>loncom/build/CHECKRPMS.fedora</source>
 <target dist='default'>usr/local/loncapa/bin/CHECKRPMS</target>
 <categoryname>system script</categoryname>
 <description>
@@ -5489,6 +6335,7 @@ file that allows setuid password privile
 <file>
 <source>loncom/init.d/loncontrol</source>
 <target dist='default'>etc/rc.d/init.d/loncontrol</target>
+<target dist='suse9.2 suse9.3 sles9'>etc/init.d/loncontrol</target>
 <categoryname>root script</categoryname>
 <description>
 Controls the launching/halting of lonc, lond, and lonsql processes.
@@ -5519,6 +6366,47 @@ Appleshares access (Macintosh)
 </description>
 </file>
 <file>
+  <source>loncom/interface/loncss.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/loncss.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+    Generates standard LON-CAPA CSS
+  </description>
+</file>
+<file>
+  <source>loncom/LONCAPA.pm</source>
+  <target dist='default'>home/httpd/lib/perl/LONCAPA.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+    Some basic Lon-CAPA functionality
+  </description>
+</file>
+<file>
+  <source>loncom/interface/lonnotify.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/lonnotify.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+    Interface for Domain Coordinators to (a) send broadcast e-mail to groups 
+of users, and (b) to display e-mail of this type sent in the past.
+  </description>
+</file>
+<file>
+  <source>loncom/interface/lonhelpmenu.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/lonhelpmenu.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+    Creates a multipage help screen to help users out.
+  </description>
+</file>
+<file>
+  <source>loncom/interface/lonsupportreq.pm</source>
+  <target dist='default'>home/httpd/lib/perl/Apache/lonsupportreq.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+    Handler to make it easy for users to send a request to te helpdesk
+  </description>
+</file>
+<file>
   <source>loncom/interface/lonmodifycourse.pm</source>
   <target dist='default'>home/httpd/lib/perl/Apache/lonmodifycourse.pm</target>
   <categoryname>handler</categoryname>
@@ -5567,5 +6455,71 @@ Appleshares access (Macintosh)
     Local handler for automated enrollment, standard version.
   </description>
 </file>
+<file>
+  <source>loncom/auth/localstudentphoto.pm</source>
+  <target dist='default'>home/httpd/lib/perl/localstudentphoto.pm</target>
+  <categoryname>conf</categoryname>
+  <description>
+    Local handler for automated enrollment.
+  </description>
+</file>
+<file>
+  <source>loncom/auth/localstudentphoto.pm</source>
+  <target dist='default'>home/httpd/lib/perl/localstudentphoto-std.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+    Local handler for automated enrollment, standard version.
+  </description>
+</file>
+<file>
+  <source>loncom/automation/batchcreatecourse.pm</source>
+  <target dist='default'>home/httpd/lib/perl/LONCAPA/batchcreatecourse.pm</target>
+  <categoryname>handler</categoryname>
+  <description>
+    Handler for batch creation of courses.
+  </description>
+</file>
+<file>
+  <source>loncom/automation/Autocreate.pl</source>Autocreate.pl
+  <target dist='default'>home/httpd/perl/Autocreate.pl</target>
+  <categoryname>script</categoryname>
+  <description>
+    Script for automated course creation.
+  </description>
+</file>
+<fileglob>
+    <glob>*</glob>
+    <sourcedir>loncom/debugging_tools/</sourcedir>
+    <targetdir dist='default'>home/httpd/perl/debug/</targetdir>
+    <categoryname>script</categoryname>
+    <description>
+      Tools for helping debug Lon-CAPA
+    </description>
+<filenames>
+activity_to_accesscount.pl;
+clean_db.pl;
+dump_db.pl;
+escape.pl;
+excise_from_db.pl;
+getties.pl;
+login_count.pl;
+modify_config_files.pl;
+parse_scantron.pl;
+seed_accesscount.pl;
+stress.pl;
+unescape.pl;
+user_login_count.pl;
+</filenames>
+</fileglob>
+<file>
+<source>loncom/build/distprobe</source>
+<target dist='default'>home/httpd/perl/distprobe</target>
+<categoryname>script</categoryname>
+<description>
+for probing operating system flavor and version
+</description>
+<note>
+</note>
+</file>
 </files>
 </lpml>