54c1befd1ac95aab8c80c7e2e400a90d01849237
angie
  Fri Jan 9 16:41:47 2015 -0800
New CGI hgAi (Annotation Integrator) that uses new ReactJS/ImmutableJS framework.hgAi.c has three modes of operation:
- HTML output for simple main page with a <div> container to be filled in by javascript
- JSON responses to ajax requests from javascript (using hg/lib/cartJson.c)
- text output for queries on track data

hgAi.jsx is the React/JSX UI view code, compiled to bundle/reactHgAi.js.
hgAiModel.js is a subclass of js/model/lib/ImModel.js that gets initial state
from the server and then responds to user actions.

diff --git src/hg/inc/hCommon.h src/hg/inc/hCommon.h
index 7c0b6dc..59ce675 100644
--- src/hg/inc/hCommon.h
+++ src/hg/inc/hCommon.h
@@ -1,138 +1,141 @@
 /* hCommon.h - routines used by many files in hgap project. */
 
 /* Copyright (C) 2013 The Regents of the University of California 
  * See README in this or parent directory for licensing information. */
 
 #ifndef HCOMMON_H
 #define HCOMMON_H
 
 #ifndef HGCOLORS_H
 #include "hgColors.h"
 #endif
 
 char *hgcName();
 /* Relative URL to click processing program. */
 
 char *hgTracksName();
 /* Relative URL to browser. */
 
 char *hgTrackUiName();
 /* Relative URL to extended track UI. */
 
 char *hgFileUiName();
 /* Relative URL to downloladable files UI. */
 
 char *hgTextName();
 /* Relative URL to old table browser. */
 
 char *hgTablesName();
 /* Relative URL to table browser. */
 
 char *hgVaiName();
 /* Relative URL to variant annotation integrator. */
 
 char *hgCustomName();
 /* Relative URL to custom tracks manager. */
 
 char *hgHubConnectName();
 /* Relative URL to track hub manager. */
 
 char *hgSessionName();
 /* Relative URL to session manager. */
 
 char *hgPalName();
 /* Relative URL to click processing program. */
 
 char *hgVarAnnogratorName();
 /* Relative URL to variant annotation integrator program. */
 
+char *hgAiName();
+/* Relative URL to annotation integrator program. */
+
 void fragToCloneName(char *fragName, char cloneName[128]);
 /* Convert fragment name to clone name. */
 
 void fragToCloneVerName(char *fragName, char cloneVerName[128]);
 /* Convert fragment name to clone.version name. */
 
 void recNameToFileName(char *dir, char *recName, char *fileName, char *suffix);
 /* Convert UCSC style fragment name to name of file for a clone. */
 
 void faRecNameToFaFileName(char *dir, char *recName, char *fileName);
 /* Convert fa record name to file name. */
 
 void faRecNameToQacFileName(char *dir, char *recName, char *fileName);
 /* Convert fa record name to file name. */
 
 void gsToUcsc(char *gsName, char *ucscName);
 /* Convert from
  *    AC020585.5~1.2 Fragment 2 of 29 (AC020585.5:1..1195)
  * to
  *    AC020585.5_1_2
  */
 
 char *skipChr(char *s);
 /* Skip leading 'chr' in string (to get the actual chromosome part). */
 
 int chromToInt(char *s);
 /* converts a chrom name chrXX into an integer from 1 to 54.
  *  X = 23 Y = 24 Un = 25 M = 26 random = chr + 26;*/
 
 boolean hIsGisaidServer();
 /* Is this the GISAID-customized server? Change for config variable
  * gisaid.server=yes */
 
 boolean hIsGsidServer();
 /* Is this the GSID-customized server? Change for config variable
  * gsid.server=yes */
 
 boolean hIsCgbServer();
 /* Is this a cancer genome browser server? Change for config variable
  * cgb.server=yes */
 
 void hTableStart();
 /* Output a table with solid borders. */
 
 void hTableEnd();
 /* Close out table started with hTableStart() */
 
 #define hgDefaultPixWidth 800
 #define DEFAULT_PIX_WIDTH "800"
 /* if this default pix width is changed, also note relationship in
  * CONTROL_TABLE_WIDTH in hui.h */
 #define	hgDefaultLeftLabelWidth	120
 #define	hgDefaultGfxBorder	1
 
 /* gisaid selection file option variable names */
 #define gisaidSubjList "gisaidTable.gisaidSubjList"
 #define gisaidSeqList "gisaidTable.gisaidSeqList"
 #define gisaidAaSeqList "gisaidTable.gisaidAaSeqList"
 
 boolean validateGisaidUser();
 
 boolean hDumpStackEnabled(void);
 /* is browser.dumpStack enabled?  */
 
 void hDumpStackDisallow(void);
 /* prevent any dumping of the stack */
 
 void hDumpStackPushAbortHandler(void);
 /* push the stack dump abort handler on the stack if it's enabled.  This should be pushed
  * after the warn handle that will do the actual reporting */
 
 void hDumpStackPopAbortHandler(void);
 /* pop the stack dump abort handler from the stack if it's enabled */
 
 void hVaUserAbort(char *format, va_list args);
 /* errAbort when a `user' error is detected.  This is an error that comes
  * from user input. This disables the logging stack dumps. */
 
 void hUserAbort(char *format, ...)
 /* errAbort when a `user' error is detected.  This is an error that comes
  * from user input. This disables the logging stack dumps. */
 #if defined(__GNUC__)
 __attribute__((format(printf, 1, 2)))
 #endif
 ;
 
 boolean hAllowAllTables(void);
 /* Return TRUE if hg.conf's hgta.disableAllTables doesn't forbid an 'all tables' menu. */
 
 #endif /* HCOMMON_H */