void doMiddle()
{
char *preIntron, *startIntron, *endIntron, *postIntron;
int count = 0;
int matchCount = 0;
int maxCount;
struct nameOff *matchList;
boolean invert = cgiVarExists("Invert");
preIntron = cgiString("preIntron");
startIntron = cgiString("startIntron");
endIntron = cgiString("endIntron");
postIntron = cgiString("postIntron");
/* Just for debugging cut search short if matches special magic */
maxCount = atoi(preIntron);
if (maxCount <= 0)
maxCount = 0x7ffffff;
eraseWhiteSpace(preIntron);
eraseWhiteSpace(startIntron);
eraseWhiteSpace(endIntron);
eraseWhiteSpace(postIntron);
tolowers(preIntron);
tolowers(startIntron);
tolowers(endIntron);
tolowers(postIntron);
matchList = scanIntronFile(preIntron, startIntron, endIntron, postIntron, invert);
if (matchList == NULL)
errAbort("Sorry, no matches to %s%s %s %s %s", (invert ? "inverted " : ""), preIntron, startIntron, endIntron, postIntron);
printf("<P>%d introns matching %s%s(%s %s)%s. ", slCount(matchList),
(invert ? "inverted " : ""), preIntron, startIntron, endIntron, postIntron);
printf("Shortcut to <A HREF=\"#1\">frequency counts.</A></P>");
htmlHorizontalLine();
showMatches(matchList);
htmlHorizontalLine();
printf("<TT><PRE>");
printf("<A NAME=\"1\"></A>");
printAllHistograms();
printf("</TT></PRE>");
}
struct phyloTree *phyloParseString(char *string)
/* build a phyloTree from a string */
{
struct phyloTree *tree = NULL;
char *ptr = string;
eraseWhiteSpace(string);
tree = parseSubTree(&ptr);
if (*ptr != ';')
errAbort("expecting tree terminator ';', found '%s'", ptr);
return tree;
}
struct phyloTree *phyloParseString(char *string)
/* build a phyloTree from a string */
{
struct phyloTree *tree = NULL;
char *ptr = string;
eraseWhiteSpace(string);
tree = parseSubTree(&ptr);
if (*ptr != ';')
errAbort("trees must terminated by ';'");
return tree;
}
