static void showTableButtons(char *db, char *table, boolean withGetButton)
/* Put up the last buttons in a showTable section. */
{
hPrintf("<BR>\n");
if (withGetButton)
{
if (doGalaxy()) /* need form fields here and Galaxy so add step to Galaxy */
cgiMakeButton(hgtaDoGalaxySelectedFields, "done with selections");
else
cgiMakeButton(hgtaDoPrintSelectedFields, "get output");
hPrintf(" ");
cgiMakeButton(hgtaDoMainPage, "cancel");
hPrintf(" ");
}
jsInit();
cgiMakeOnClickSubmitButton(jsSetVerticalPosition("mainForm"),
setClearAllVar(hgtaDoSetAllFieldPrefix,db,table),
"check all");
hPrintf(" ");
cgiMakeOnClickSubmitButton(jsSetVerticalPosition("mainForm"),
setClearAllVar(hgtaDoClearAllFieldPrefix,db,table),
"clear all");
cgiDown(0.7); // Extra spacing below the buttons
}
void jsMakeSetClearButton(struct cart *cart,
char *form, char *buttonVar, char *buttonLabel,
char *cartVarPrefix, struct slName *cartVarSuffixList,
char *anchor, boolean currentPos, boolean isSet)
/* Make a button for setting or clearing all of a list of boolean
* cart variables (i.e. checkboxes). If this button was just pressed,
* set or clear those cart variables.
* Optional html anchor is appended to the form's action if given.
* If currentPos, anchor is ignored and jsSetVerticalPosition is used so
* that the new page gets the same vertical offset as the current page. */
{
struct slName *suffix;
char javascript[2048];
char *vertPosJs = "";
if (currentPos)
{
anchor = NULL;
jsInit();
vertPosJs = jsSetVerticalPosition(form);
}
cgiMakeHiddenVar(buttonVar, "");
safef(javascript, sizeof javascript,
"document.%s.action = '%s%s%s'; document.%s.%s.value='%s'; %s"
"document.%s.submit();",
form, cgiScriptName(),
(isNotEmpty(anchor) ? "#" : ""), (isNotEmpty(anchor) ? anchor : ""),
form, buttonVar, buttonLabel, vertPosJs, form);
cgiMakeOnClickButton(javascript, buttonLabel);
if (isNotEmpty(cgiOptionalString(buttonVar)))
{
char option[1024];
if (cartVarPrefix == NULL)
cartVarPrefix = "";
for (suffix = cartVarSuffixList; suffix != NULL; suffix = suffix->next)
{
safef(option, sizeof(option), "%s%s", cartVarPrefix, suffix->name);
cartSetBoolean(cart, option, isSet);
}
}
}
static void trackConfig(struct track *trackList, struct group *groupList,
char *groupTarget, int changeVis)
/* Put up track configurations. If groupTarget is
* NULL then set visibility for tracks in all groups. Otherwise,
* just set it for the given group. If vis is -2, then visibility is
* unchanged. If -1 then set visibility to default, otherwise it should
* be tvHide, tvDense, etc. */
{
struct group *group;
boolean showedRuler = FALSE;
setRulerMode();
changeTrackVis(groupList, groupTarget, changeVis);
/* Set up ruler mode according to changeVis. */
#ifdef BOB_DOESNT_LIKE
if (changeVis != -2)
{
if (groupTarget == NULL ||
(groupList != NULL && sameString(groupTarget, groupList->name)))
{
if (changeVis == -1)
rulerMode = tvFull;
else
rulerMode = changeVis;
}
}
#endif /* BOB_DOESNT_LIKE */
jsInit();
cgiMakeHiddenVar(configGroupTarget, "none");
// Now all groups are in a single table, divided by an empty borderless row
hPrintf("<TABLE BORDER='0' CELLSPACING='0' class='groupLists'>\n");
for (group = groupList; group != NULL; group = group->next)
{
struct trackRef *tr;
if (group->trackList == NULL)
continue;
/* check if group section should be displayed */
char *otherState;
char *indicator;
char *indicatorImg;
boolean isOpen = !isCollapsedGroup(group);
collapseGroupGoodies(isOpen, FALSE, &indicatorImg,
&indicator, &otherState);
hPrintf("<TR NOWRAP class='blueToggleBar'>");
hPrintf("<TH NOWRAP align='left' colspan=3>");
hPrintf("<table style='width:100%%;'><tr class='noData'><td style='text-align:left;'>");
hPrintf("\n<A NAME='%sGroup'></A>",group->name);
hPrintf("<input type=hidden name='%s' id='%s' value=%d>",
collapseGroupVar(group->name),collapseGroupVar(group->name), (isOpen?0:1));
char idText[256];
safef(idText, sizeof idText, "%s_button", group->name);
hPrintf("<IMG class='toggleButton' "
"id='%s' src='%s' alt='%s' title='%s this group'> ",
idText, indicatorImg, indicator,isOpen?"Collapse":"Expand");
// TODO XSS filter group->name
jsOnEventByIdF("click", idText, "return vis.toggleForGroup(this,'%s');", group->name);
hPrintf("<B> %s</B> ", group->label);
hPrintf(" ");
hPrintf("</td><td style='text-align:right;'>\n");
safef(idText, sizeof idText, "%s_hideAllBut", group->name);
hPrintf("<INPUT TYPE=SUBMIT NAME=\"%s\" id='%s' VALUE=\"%s\" "
"title='Hide all tracks in this groups'>",
configHideAll, idText, "hide all");
// TODO XSS filter configGroupTarget
char jsText[256];
// used several times
safef(jsText, sizeof jsText, "document.mainForm.%s.value='%s'; %s",
configGroupTarget, group->name, jsSetVerticalPosition("mainForm"));
jsOnEventById("click", idText, jsText);
hPrintf(" ");
safef(idText, sizeof idText, "%s_showAllBut", group->name);
hPrintf("<INPUT TYPE=SUBMIT NAME=\"%s\" id='%s' VALUE=\"%s\" "
"title='Show all tracks in this groups'>",
configShowAll, idText, "show all");
jsOnEventById("click", idText, jsText);
hPrintf(" ");
safef(idText, sizeof idText, "%s_defaultBut", group->name);
hPrintf("<INPUT TYPE=SUBMIT NAME=\"%s\" id='%s' VALUE=\"%s\" "
"title='Show default tracks in this group'>",
configDefaultAll, idText, "default");
jsOnEventById("click", idText, jsText);
hPrintf(" ");
/* do not want all the submit buttons named the same. It is
* confusing to the javascript submit() function.
*/
char submitName[256];
safef(submitName, sizeof(submitName), "%sSubmit", group->name);
cgiMakeButtonWithMsg(submitName, "submit","Submit your selections and view them in the browser");
hPrintf("</td></tr></table>\n");
hPrintf("</TH></TR>\n");
/* First non-CT, non-hub group gets ruler. */
if (!showedRuler && !isHubTrack(group->name) &&
differentString(group->name, "user"))
{
showedRuler = TRUE;
hPrintf("<TR %sid='%s-0'>",(isOpen ? "" : "style='display: none'"), group->name);
hPrintf("<TD>");
hPrintf("<A HREF=\"%s?%s=%s&c=%s&g=%s&hgTracksConfigPage=configure\">", hgTrackUiName(),
cartSessionVarName(), cartSessionId(cart),
chromName, RULER_TRACK_NAME);
hPrintf("%s</A>", RULER_TRACK_LABEL);
hPrintf("</TD><TD>");
hTvDropDownClass("ruler", rulerMode, FALSE, rulerMode ? "normalText" : "hiddenText");
hPrintf("</TD><TD>");
hPrintf("Chromosome position in bases. (Clicks here zoom in 3x)");
hPrintf("</TD></TR>\n");
}
/* Scan track list to determine which supertracks have visible member
* tracks, and to insert a track in the list for the supertrack.
* Sort tracks and supertracks together by priority */
makeGlobalTrackHash(trackList);
groupTrackListAddSuper(cart, group);
if (!withPriorityOverride)
{
/* sort hierarchically by priority, considering supertracks */
struct trackRef *refList = NULL, *ref;
for (tr = group->trackList; tr != NULL; tr = tr->next)
{
struct track *track = tr->track;
if (tdbIsSuperTrackChild(track->tdb))
/* ignore supertrack member tracks till supertrack is found */
continue;
AllocVar(ref);
ref->track = track;
slAddTail(&refList, ref);
if (tdbIsSuper(track->tdb))
{
struct slRef *child = track->tdb->children;
for (; child != NULL; child=child->next)
{
struct trackDb *childTdb = child->val;
struct track *childTrack = hashFindVal(trackHash, childTdb->track);
// Try adding downloadsOnly track
if (childTrack == NULL && tdbIsDownloadsOnly(childTdb))
{
AllocVar(childTrack); // Fake a track!
childTrack->tdb = childTdb;
childTrack->hasUi = FALSE;
}
if (childTrack != NULL)
{
AllocVar(ref);
ref->track = childTrack;
slAddTail(&refList, ref);
}
}
}
}
group->trackList = refList;
}
/* Loop through this group and display */
int rowCount=1;
for (tr = group->trackList; tr != NULL; tr = tr->next)
{
struct track *track = tr->track;
struct trackDb *tdb = track->tdb;
hPrintf("<TR %sid='%s-%d'>",(isOpen ? "" : "style='display: none;'"),
group->name, rowCount++);
hPrintf("<TD NOWRAP>");
if (tdbIsSuperTrackChild(tdb))
/* indent members of a supertrack */
hPrintf(" ");
// Print an icon before the title when one is defined
hPrintPennantIcon(tdb);
if (track->hasUi)
hPrintf("<A TITLE='%s%s...' HREF='%s?%s=%s&g=%s&hgTracksConfigPage=configure'>",
tdb->parent ? "Part of super track: " : "Configure ",
tdb->parent ? tdb->parent->shortLabel : tdb->shortLabel,
hTrackUiForTrack(tdb->track),
cartSessionVarName(), cartSessionId(cart), track->track);
hPrintf(" %s", tdb->shortLabel);
if (tdbIsSuper(tdb))
hPrintf("...");
if (track->hasUi)
hPrintf("</A>");
hPrintf("</TD><TD NOWRAP>");
if (tdbIsSuperTrackChild(tdb))
/* indent members of a supertrack */
hPrintf(" ");
/* If track is not on this chrom print an informational
message for the user. */
if (tdbIsDownloadsOnly(tdb)) // No vis display for downloadsOnly
hPrintf("<A TITLE='Downloadable files...' HREF='%s?%s=%s&g=%s'>Downloads</A>",
hgFileUiName(),cartSessionVarName(), cartSessionId(cart), tdb->track);
else if (hTrackOnChrom(track->tdb, chromName))
{
if (tdbIsSuper(track->tdb))
{
/* supertrack dropdown is hide/show */
superTrackDropDown(cart, track->tdb, 1);
}
else
{
/* check for option of limiting visibility to one mode */
hTvDropDownClassVisOnly(track->track, track->visibility,
rTdbTreeCanPack(track->tdb),
(track->visibility == tvHide) ? "hiddenText" : "normalText",
trackDbSetting(track->tdb, "onlyVisibility"));
}
}
else
hPrintf("[No data-%s]", chromName);
hPrintf("</TD><TD NOWRAP>");
hPrintf("%s", tdb->longLabel);
hPrintf("</TD></TR>\n");
}
hPrintf("<tr class='noData'><td colspan=3>");
cgiDown(0.9);
hPrintf("</td></tr>\n");
}
hPrintf("</TABLE>\n");
}
static void trackConfig(struct track *trackList, struct group *groupList,
char *groupTarget, int changeVis)
/* Put up track configurations. If groupTarget is
* NULL then set visibility for tracks in all groups. Otherwise,
* just set it for the given group. If vis is -2, then visibility is
* unchanged. If -1 then set visibility to default, otherwise it should
* be tvHide, tvDense, etc. */
{
#ifdef PRIORITY_CHANGES_IN_CONFIG_UI
char pname[512];
char gname[512];
#endif///def PRIORITY_CHANGES_IN_CONFIG_UI
struct group *group;
boolean showedRuler = FALSE;
setRulerMode();
changeTrackVis(groupList, groupTarget, changeVis);
/* Set up ruler mode according to changeVis. */
#ifdef BOB_DOESNT_LIKE
if (changeVis != -2)
{
if (groupTarget == NULL ||
(groupList != NULL && sameString(groupTarget, groupList->name)))
{
if (changeVis == -1)
rulerMode = tvFull;
else
rulerMode = changeVis;
}
}
#endif /* BOB_DOESNT_LIKE */
jsInit();
cgiMakeHiddenVar(configGroupTarget, "none");
boolean isFirstNotCtGroup = TRUE;
for (group = groupList; group != NULL; group = group->next)
{
struct trackRef *tr;
if (group->trackList == NULL)
continue;
/* check if group section should be displayed */
char *otherState;
char *indicator;
char *indicatorImg;
boolean isOpen = !isCollapsedGroup(group);
collapseGroupGoodies(isOpen, FALSE, &indicatorImg,
&indicator, &otherState);
hTableStart();
hPrintf("<TR NOWRAP>");
hPrintf("<TH NOWRAP align=\"left\" colspan=3 BGCOLOR=#536ED3>");
hPrintf("\n<A NAME='%sGroup'></A>",group->name);
hPrintf("<input type=hidden name='%s' id='%s' value=%d>",
collapseGroupVar(group->name),collapseGroupVar(group->name), (isOpen?0:1));
hPrintf("<A HREF='%s?%s&%s=%s#%sGroup' class='bigBlue'><IMG height=22 width=22 onclick=\"return toggleTrackGroupVisibility(this,'%s');\" id='%s_button' src='%s' alt='%s' class='bigBlue' title='%s this group'></A> ",
hgTracksName(), cartSidUrlString(cart),collapseGroupVar(group->name),
otherState, group->name, group->name, group->name, indicatorImg, indicator,isOpen?"Collapse":"Expand");
hPrintf("<B> %s</B> ", wrapWhiteFont(group->label));
hPrintf(" ");
hPrintf("<INPUT TYPE=SUBMIT NAME=\"%s\" VALUE=\"%s\" "
"onClick=\"document.mainForm.%s.value='%s'; %s\" title='Hide all tracks in this groups'>",
configHideAll, "hide all", configGroupTarget, group->name,
jsSetVerticalPosition("mainForm"));
hPrintf(" ");
hPrintf("<INPUT TYPE=SUBMIT NAME=\"%s\" VALUE=\"%s\" "
"onClick=\"document.mainForm.%s.value='%s'; %s\" title='Show all tracks in this groups'>",
configShowAll, "show all", configGroupTarget, group->name,
jsSetVerticalPosition("mainForm"));
hPrintf(" ");
hPrintf("<INPUT TYPE=SUBMIT NAME=\"%s\" VALUE=\"%s\" "
"onClick=\"document.mainForm.%s.value='%s'; %s\" title='Show default tracks in this group'>",
configDefaultAll, "default", configGroupTarget, group->name,
jsSetVerticalPosition("mainForm"));
hPrintf(" ");
/* do not want all the submit buttons named the same. It is
* confusing to the javascript submit() function.
*/
char submitName[256];
safef(submitName, sizeof(submitName), "%sSubmit", group->name);
cgiMakeButtonWithMsg(submitName, "submit","Submit your selections and view them in the browser");
#ifdef PRIORITY_CHANGES_IN_CONFIG_UI
if (withPriorityOverride)
{
hPrintf(" ");
hPrintf(" ");
hPrintf(" ");
hPrintf("%s", wrapWhiteFont("Group Order: "));
}
#endif///def PRIORITY_CHANGES_IN_CONFIG_UI
hPrintf("</TH>\n");
#ifdef PRIORITY_CHANGES_IN_CONFIG_UI
if (withPriorityOverride)
{
hPrintf("<TH>\n");
safef(pname, sizeof(pname), "%s.priority",group->name);
hDoubleVar(pname, (double)group->priority, 4);
hPrintf("</TH>\n");
if (isOpen)
hPrintf("<TH align=CENTER BGCOLOR=#536ED3><B> %s</B></TH> ", wrapWhiteFont("Group"));
hPrintf("\n");
}
#endif///def PRIORITY_CHANGES_IN_CONFIG_UI
hPrintf("</TR>\n");
/* First non-CT group gets ruler. */
if (!showedRuler && isFirstNotCtGroup &&
differentString(group->name, "user"))
{
showedRuler = TRUE;
hPrintf("<TR %sid='%s-0'>",(isOpen ? "" : "style='display: none'"), group->name);
hPrintf("<TD>");
hPrintf("<A HREF=\"%s?%s=%u&c=%s&g=%s&hgTracksConfigPage=configure\">", hgTrackUiName(),
cartSessionVarName(), cartSessionId(cart),
chromName, RULER_TRACK_NAME);
hPrintf("%s</A>", RULER_TRACK_LABEL);
hPrintf("</TD>");
hPrintf("<TD>");
hTvDropDownClass("ruler", rulerMode, FALSE, rulerMode ? "normalText" : "hiddenText");
hPrintf("</TD>");
hPrintf("<TD>");
hPrintf("Chromosome position in bases. (Clicks here zoom in 3x)");
hPrintf("</TD>");
#ifdef PRIORITY_CHANGES_IN_CONFIG_UI
if (withPriorityOverride)
{
hPrintf("<TD>");
hPrintf("</TD>");
hPrintf("<TD>");
hPrintf("</TD>");
}
#endif///def PRIORITY_CHANGES_IN_CONFIG_UI
hPrintf("</TR>\n");
}
if (differentString(group->name, "user"))
isFirstNotCtGroup = FALSE;
/* Scan track list to determine which supertracks have visible member
* tracks, and to insert a track in the list for the supertrack.
* Sort tracks and supertracks together by priority */
groupTrackListAddSuper(cart, group);
if (!withPriorityOverride)
{
/* sort hierarchically by priority, considering supertracks */
struct trackRef *refList = NULL, *ref;
for (tr = group->trackList; tr != NULL; tr = tr->next)
{
struct track *track = tr->track;
if (tdbIsSuperTrackChild(track->tdb))
/* ignore supertrack member tracks till supertrack is found */
continue;
AllocVar(ref);
ref->track = track;
slAddTail(&refList, ref);
if (tdbIsSuper(track->tdb))
{
struct trackRef *tr2;
for (tr2 = group->trackList; tr2 != NULL; tr2 = tr2->next)
{
char *parent = tr2->track->tdb->parentName;
if (parent && sameString(parent, track->track))
{
AllocVar(ref);
ref->track = tr2->track;
slAddTail(&refList, ref);
}
}
}
}
group->trackList = refList;
}
/* Loop through this group and display */
int rowCount=1;
for (tr = group->trackList; tr != NULL; tr = tr->next)
{
struct track *track = tr->track;
struct trackDb *tdb = track->tdb;
hPrintf("<TR %sid='%s-%d'>",(isOpen ? "" : "style='display: none'"),group->name, rowCount++);
hPrintf("<TD NOWRAP>");
if (tdbIsSuperTrackChild(tdb))
/* indent members of a supertrack */
hPrintf(" ");
// Print an icon before the title when one is defined
hPrintPennantIcon(track->tdb);
if (track->hasUi)
hPrintf("<A %s%s%s HREF=\"%s?%s=%u&g=%s&hgTracksConfigPage=configure\">",
tdb->parent ? "TITLE=\"Part of super track: " : "",
tdb->parent ? tdb->parent->shortLabel : "",
tdb->parent ? "...\"" : "", hgTrackUiName(),
cartSessionVarName(), cartSessionId(cart), track->track);
hPrintf(" %s", track->shortLabel);
if (tdbIsSuper(track->tdb))
hPrintf("...");
if (track->hasUi)
hPrintf("</A>");
hPrintf("</TD>");
hPrintf("<TD NOWRAP>");
if (tdbIsSuperTrackChild(tdb))
/* indent members of a supertrack */
hPrintf(" ");
/* If track is not on this chrom print an informational
message for the user. */
if (hTrackOnChrom(track->tdb, chromName))
{
if (tdbIsSuper(track->tdb))
{
/* supertrack dropdown is hide/show */
superTrackDropDown(cart, track->tdb, 1);
}
else
{
/* check for option of limiting visibility to one mode */
hTvDropDownClassVisOnly(track->track, track->visibility,
track->canPack, (track->visibility == tvHide) ?
"hiddenText" : "normalText",
trackDbSetting(track->tdb, "onlyVisibility"));
}
}
else
hPrintf("[No data-%s]", chromName);
hPrintf("</TD>");
hPrintf("<TD NOWRAP>");
hPrintf("%s", track->longLabel);
hPrintf("</TD>");
#ifdef PRIORITY_CHANGES_IN_CONFIG_UI
if (withPriorityOverride)
{
hPrintf("<TD>");
safef(pname, sizeof(pname), "%s.priority",track->track);
hDoubleVar(pname, (double)track->priority, 4);
hPrintf("</TD>");
hPrintf("<TD>\n");
/* suppress group pull-down for supertrack members */
if (tdbIsSuperTrackChild(track->tdb))
hPrintf(" ");
else
{
safef(gname, sizeof(gname), "%s.group",track->track);
printGroupListHtml(gname, groupList, track->groupName);
}
hPrintf("</TD>");
}
#endif///def PRIORITY_CHANGES_IN_CONFIG_UI
hPrintf("</TR>\n");
}
hTableEnd();
hPrintf("<BR>");
}
}