--- doc/loncapafiles/loncapafiles.lpml	2004/11/23 15:56:59	1.401
+++ doc/loncapafiles/loncapafiles.lpml	2005/09/29 20:06:53	1.454.2.1
@@ -2,7 +2,7 @@
  "http://lpml.sourceforge.net/DTD/lpml.dtd">
 <!-- loncapafiles.lpml -->
 
-<!-- $Id: loncapafiles.lpml,v 1.401 2004/11/23 15:56:59 albertel Exp $ -->
+<!-- $Id: loncapafiles.lpml,v 1.454.2.1 2005/09/29 20:06:53 albertel Exp $ -->
 
 <!--
 
@@ -319,6 +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>
@@ -420,6 +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>
@@ -504,6 +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>
@@ -516,6 +534,18 @@ 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/helper</targetdir>
   <categoryname>server readonly</categoryname>
   <description>XML specifications for helpers</description>
@@ -1344,7 +1374,11 @@ 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>
@@ -1552,8 +1586,16 @@ 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</target>
+    <target dist='default'>home/httpd/lonCerts/request_ssl_key.sh</target>
     <categoryname>script</categoryname>
     <description>
         Script that requests a Lon-CAPA ssl key.
@@ -1643,7 +1685,9 @@ echo 'pod2html lond'
 </file>
 <file>
 <source dist='default'>loncom/build/CHECKRPMS.default</source>
-<source dist='fedora1 fedora2 fedora3'>loncom/build/CHECKRPMS.fedora</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>
@@ -2128,6 +2172,15 @@ 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>
@@ -2440,6 +2493,7 @@ Analysis_Analyze_Over.tex;
 Analyze_Problem.tex;
 Annotation.tex;
 Authentication.tex;
+Auth_Options.tex;
 Authoring_Adding_Pictures.tex;
 Authoring_DataResponse.tex;
 Authoring_Dynamic_Plot_Axes.tex;
@@ -2548,6 +2602,7 @@ 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;
@@ -2627,9 +2682,11 @@ Prefs_Language.tex;
 Prefs_Screen_Name_Nickname.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_Types.tex;
 Publishing_A_Resource.tex;
 Publishing_Author_Tutorial_Segue.tex;
@@ -2744,6 +2801,25 @@ 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>
@@ -2849,6 +2925,16 @@ 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>
@@ -2989,6 +3075,15 @@ 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>
@@ -3273,6 +3368,23 @@ 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>
@@ -3282,6 +3394,29 @@ 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-fallback-mac.js;
+jsMath-fallback-mac-mozilla.js;
+jsMath-fallback-mac-msie.js;
+jsMath-fallback-pc.js;
+jsMath-fallback-unix.js;
+jsMath.js;
+jsMath-mozilla.js;
+jsMath-msie-mac.js;
+  </filenames>
+</fileglob>
+
 <file>
 <source>loncom/interface/lontest.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lontest.pm</target>
@@ -3302,15 +3437,6 @@ 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>
@@ -3418,6 +3544,15 @@ 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/interface/lonquickgrades.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonquickgrades.pm</target>
 <categoryname>handler</categoryname>
@@ -3608,7 +3743,16 @@ 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>
@@ -4030,6 +4174,15 @@ 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>
@@ -4448,12 +4601,12 @@ 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>
@@ -4819,6 +4972,8 @@ srvhalf.gif;
 srvnull.gif;
 survey.gif;
 survey_big.gif;
+task.gif;
+task_big.gif;
 tex.gif;
 tex_big.gif;
 tth.gif;
@@ -4879,6 +5034,15 @@ 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='default'>home/httpd/lib/perl/tth.pm</target>
 <categoryname>system file</categoryname>
@@ -5010,14 +5174,15 @@ 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>
@@ -5090,6 +5255,27 @@ 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;
+</dependencies>
+</file>
 <fileglob>
 <glob>*.ent</glob>
 <sourcedir>loncom/MathML/</sourcedir>
@@ -5201,6 +5387,10 @@ student.jpg;
 <description>Logos of LON-CAPA domains (jpg)</description>
 <filenames>
 headermsu.jpg;
+headertccfl.jpg;
+header_fsu.jpg;
+header_fsuK12.jpg;
+headerhope.jpg;
 </filenames>
 </fileglob>
 <fileglob>
@@ -5233,6 +5423,9 @@ unihalle.gif;
 wscc.gif;
 cps.gif;
 fsu.gif;
+fsuK12.gif;
+hope.gif;
+vcu.gif;
 lsd.gif;
 msu.gif;
 nsdl.gif;
@@ -5244,6 +5437,7 @@ fvl.gif;
 csm.gif;
 nau.gif;
 nagoya.gif;
+kanazawa.gif;
 colorado.gif;
 acadiau.gif;
 psuerie.gif;
@@ -5251,6 +5445,9 @@ redford.gif;
 huji.gif;
 ifusp.gif;
 ucsc.gif;
+uiuc.gif;
+uiucheader.gif;
+koinonia.gif;
 waverly.gif;
 cmich.gif;
 UNICAMP.gif;
@@ -5260,8 +5457,14 @@ 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>
@@ -5278,6 +5481,8 @@ csm.tab;
 huji.tab;
 nau.tab;
 nagoya.tab;
+koinonia.tab;
+kanazawa.tab;
 colorado.tab;
 acadiau.tab;
 psuerie.tab;
@@ -5285,13 +5490,21 @@ redford.tab;
 cmich.tab;
 ifusp.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>
@@ -5444,6 +5657,7 @@ logout.gif;
 mcrs.gif;
 mrk.gif;
 nav.gif;
+new.gif;
 next.gif;
 nothumb.gif;
 parm.gif;
@@ -5461,6 +5675,7 @@ res.gif;
 roles.gif;
 rtrv.gif;
 sbkm.gif;
+sctr.gif;
 spacer.gif;
 sprs.gif;
 src.gif;
@@ -5471,6 +5686,14 @@ 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>
@@ -5672,7 +5895,7 @@ javascript for handling client-side inte
 </file>
 <file>
 <source dist='default'>loncom/build/CHECKRPMS.default</source>
-<source dist='fedora1 fedora2 fedora3'>loncom/build/CHECKRPMS.fedora</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>
@@ -5777,6 +6000,7 @@ 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.
@@ -5887,16 +6111,33 @@ Appleshares access (Macintosh)
     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/lib/perl/debug/</targetdir>
+    <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;
@@ -5910,5 +6151,15 @@ 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>