static void showTableFieldsCt(char *db, char *table, boolean withGetButton) /* Put up html table with a check box for each field of custom * track. */ { struct customTrack *ct = ctLookupName(table); char *type = ct->dbTrackType; if (type == NULL) type = ct->tdb->type; struct sqlConnection *conn = hAllocConn(CUSTOM_TRASH); struct asObject *asObj = asForTdb(conn, ct->tdb); if (asObj) { struct slName *fieldList = NULL; if (ct->dbTableName != NULL) { if (isVcfTable(table, NULL)) fieldList = vcfGetFields(); else fieldList = sqlListFields(conn, ct->dbTableName); } if (fieldList == NULL) fieldList = asColNames(asObj); showTableFieldsOnList(db, table, asObj, fieldList, FALSE, withGetButton); asObjectFree(&asObj); slNameFreeList(&fieldList); } else showBedTableFields(db, table, ct->fieldCount, withGetButton); hFreeConn(&conn); }
struct bed *getFilteredBeds(struct sqlConnection *conn, char *table, struct region *region, struct lm *lm, int *retFieldCount) /* Get list of beds on single region that pass filtering. */ { boolean isTabix = FALSE; /* region may be part of a list, and the routines we call work on lists of * regions. Temporarily force region->next to NULL and restore at end. */ struct region *oldNext = region->next; struct bed *bedList = NULL; region->next = NULL; if (isBigBed(database, table, curTrack, ctLookupName)) bedList = bigBedGetFilteredBedsOnRegions(conn, database, table, region, lm, retFieldCount); else if (isBamTable(table)) bedList = bamGetFilteredBedsOnRegions(conn, database, table, region, lm, retFieldCount); else if (isVcfTable(table, &isTabix)) bedList = vcfGetFilteredBedsOnRegions(conn, database, table, region, lm, retFieldCount, isTabix); else if (isCustomTrack(table)) bedList = customTrackGetFilteredBeds(database, table, region, lm, retFieldCount); else if (sameWord(table, WIKI_TRACK_TABLE)) bedList = wikiTrackGetFilteredBeds(table, region, lm, retFieldCount); else bedList = dbGetFilteredBedsOnRegions(conn, database, database, table, table, region, lm, retFieldCount); region->next = oldNext; return bedList; }
static void showTableFieldsDb(char *db, char *rootTable, boolean withGetButton) /* Put up a little html table with a check box, name, and hopefully * a description for each field in SQL rootTable. */ { struct sqlConnection *conn = NULL; if (!trackHubDatabase(database)) conn = hAllocConn(db); struct trackDb *tdb = findTdbForTable(db, curTrack, rootTable, ctLookupName); struct asObject *asObj = asForTable(conn, rootTable); boolean showItemRgb = FALSE; showItemRgb=bedItemRgb(tdb); /* should we expect itemRgb instead of "reserved" */ struct slName *fieldList; if (isBigBed(database, rootTable, curTrack, ctLookupName)) fieldList = bigBedGetFields(rootTable, conn); else if (isBamTable(rootTable)) fieldList = bamGetFields(); else if (isVcfTable(rootTable, NULL)) fieldList = vcfGetFields(); else { char *table = chromTable(conn, rootTable); fieldList = sqlListFields(conn, table); freez(&table); } showTableFieldsOnList(db, rootTable, asObj, fieldList, showItemRgb, withGetButton); hFreeConn(&conn); }
static struct slName *getExamples(char *db, struct sqlConnection *conn, char *table, char *field, int count) /* Return a list of several example values of table.field. */ { boolean isTabix = FALSE; if (isBamTable(table)) { assert(sameString(field, "qName")); return randomBamIds(table, conn, count); } else if (isBigBed(db, table, curTrack, ctLookupName)) { assert(sameString(field, "name")); return randomBigBedIds(table, conn, count); } else if (isVcfTable(table, &isTabix)) { assert(sameString(field, "id")); return randomVcfIds(table, conn, count, isTabix); } else { char fullTable[HDB_MAX_TABLE_STRING]; char *c = strchr(table, '.'); if (c || ! hFindSplitTable(database, NULL, table, fullTable, NULL)) safecpy(fullTable, sizeof(fullTable), table); return sqlRandomSampleConn(conn, fullTable, field, count); } }
boolean canIntersect(char *db, char *table) /* Return true if table exists and is positional. */ { if (isCustomTrack(table) && ctLookupName(table) != NULL) return TRUE; if (isBamTable(table)) return TRUE; if (isBigWigTable(table)) return TRUE; if (isBigBed(database, table, curTrack, ctLookupName)) return TRUE; if (isVcfTable(table, NULL)) return TRUE; if (isHubTrack(table)) return TRUE; if (sameWord(table, WIKI_TRACK_TABLE)) return TRUE; if (hTableOrSplitExists(db, table)) return isPositional(db, table); return FALSE; }
static struct hash *getAllPossibleIds(struct sqlConnection *conn, struct lm *lm, char *idField, char *extraWhere) /* If curTable is a custom track or bigFile, return NULL. Otherwise, * make a hash of all identifiers in curTable (and alias tables if specified) * so that we can check the validity of pasted/uploaded identifiers. */ { if (isCustomTrack(curTable) || isBamTable(curTable) || isVcfTable(curTable, NULL) || isBigBed(database, curTable, curTrack, ctLookupName)) return NULL; struct hash *matchHash = hashNew(20); struct slName *tableList; char *xrefTable = NULL, *xrefIdField = NULL, *aliasField = NULL; struct sqlConnection *alternateConn = conn; if (sameWord(curTable, WIKI_TRACK_TABLE)) alternateConn = wikiConnect(); if (sameWord(curTable, WIKI_TRACK_TABLE)) tableList = slNameNew(WIKI_TRACK_TABLE); else if (strchr(curTable, '.')) tableList = slNameNew(curTable); else tableList = hSplitTableNames(database, curTable); if (idField != NULL) addPrimaryIdsToHash(alternateConn, matchHash, idField, tableList, lm, extraWhere); getXrefInfo(alternateConn, &xrefTable, &xrefIdField, &aliasField); if (xrefTable != NULL) { addXrefIdsToHash(alternateConn, matchHash, idField, xrefTable, xrefIdField, aliasField, lm, extraWhere); } if (sameWord(curTable, WIKI_TRACK_TABLE)) wikiDisconnect(&alternateConn); return matchHash; }
static void filterControlsForTableDb(char *db, char *rootTable) /* Put up filter controls for a single database table. */ { struct sqlConnection *conn = NULL; if (!trackHubDatabase(db)) conn = hAllocConn(db); char *table = chromTable(conn, rootTable); struct trackDb *tdb = findTdbForTable(db, curTrack, rootTable, ctLookupName); boolean isSmallWig = isWiggle(db, table); boolean isBigWig = tdb ? tdbIsBigWig(tdb) : isBigWigTable(table); boolean isWig = isSmallWig || isBigWig; boolean isBedGr = tdb ? tdbIsBedGraph(tdb) : isBedGraph(rootTable); boolean isBb = tdb ? tdbIsBigBed(tdb) : isBigBed(database, table, curTrack, ctLookupName); boolean isBam = tdb ? tdbIsBam(tdb) : isBamTable(rootTable); boolean isVcf = tdb ? tdbIsVcf(tdb) : isVcfTable(rootTable, NULL); int bedGraphColumn = 5; /* default score column */ if (isBedGr) { int wordCount; char *words[8]; char *typeLine = cloneString(tdb->type); wordCount = chopLine(typeLine,words); if (wordCount > 1) bedGraphColumn = sqlUnsigned(words[1]); freez(&typeLine); } if (isWig) { hPrintf("<TABLE BORDER=0>\n"); if ((tdb != NULL) && (tdb->type != NULL)) { double min, max; wiggleMinMax(tdb,&min,&max); numericFilterWithLimits(db, rootTable, filterDataValueVar,filterDataValueVar,min,max,""); hPrintf("<TR><TD COLSPAN=3 ALIGN=RIGHT> (dataValue range: [%g:%g]) " "</TD></TR></TABLE>\n", min, max); } else { numericFilter(db, rootTable, filterDataValueVar,filterDataValueVar, ""); hPrintf("</TABLE>\n"); } } else { struct sqlFieldType *ftList; if (isBb) ftList = bigBedListFieldsAndTypes(tdb, conn); else if (isBam) ftList = bamListFieldsAndTypes(); else if (isVcf) ftList = vcfListFieldsAndTypes(); else ftList = sqlListFieldsAndTypes(conn, table); printSqlFieldListAsControlTable(ftList, db, rootTable, tdb, isBedGr); } /* Printf free-form query row. */ if (!(isWig||isBedGr||isBam||isVcf)) { char *name; hPrintf("<TABLE BORDER=0><TR><TD>\n"); name = filterFieldVarName(db, rootTable, "", filterRawLogicVar); cgiMakeDropList(name, logOpMenu, logOpMenuSize, cartUsualString(cart, name, logOpMenu[0])); hPrintf(" Free-form query: "); name = filterFieldVarName(db, rootTable, "", filterRawQueryVar); char *val = cartUsualString(cart, name, ""); // escape double quotes to avoid HTML parse trouble in the text input. val = htmlEncodeText(val, FALSE); cgiMakeTextVar(name, val, 50); hPrintf("</TD></TR></TABLE>\n"); } if (isWig||isBedGr||isBam||isVcf) { char *name; hPrintf("<TABLE BORDER=0><TR><TD> Limit data output to: \n"); name = filterFieldVarName(db, rootTable, "_", filterMaxOutputVar); cgiMakeDropList(name, maxOutMenu, maxOutMenuSize, cartUsualString(cart, name, maxOutMenu[0])); hPrintf(" lines</TD></TR></TABLE>\n"); } freez(&table); hFreeConn(&conn); hPrintf("<BR>\n"); cgiMakeButton(hgtaDoFilterSubmit, "submit"); hPrintf(" "); cgiMakeButton(hgtaDoMainPage, "cancel"); }
static void filterControlsForTableCt(char *db, char *table) /* Put up filter controls for a custom track. */ { struct customTrack *ct = ctLookupName(table); char *type = ct->dbTrackType; puts("<TABLE BORDER=0>"); if (type != NULL && startsWithWord("maf", type)) { stringFilterOption(db, table, "chrom", " AND "); integerFilter(db, table, "chromStart", "chromStart", " AND "); integerFilter(db, table, "chromEnd", "chromEnd", " AND "); } else if (type != NULL && (startsWithWord("makeItems", type) || sameWord("bedDetail", type) || sameWord("pgSnp", type))) { struct sqlConnection *conn = hAllocConn(CUSTOM_TRASH); struct sqlFieldType *ftList = sqlListFieldsAndTypes(conn, ct->dbTableName); printSqlFieldListAsControlTable(ftList, db, table, ct->tdb, FALSE); hFreeConn(&conn); } else if (ct->wiggle || isBigWigTable(table)) { if ((ct->tdb != NULL) && (ct->tdb != NULL)) { double min, max; wiggleMinMax(ct->tdb,&min,&max); numericFilterWithLimits("ct", table, filterDataValueVar, filterDataValueVar,min,max,""); hPrintf("<TR><TD COLSPAN=3 ALIGN=RIGHT> (dataValue range: [%g,%g]) " "</TD></TR>\n", min, max); } else { numericFilter("ct", table, filterDataValueVar, filterDataValueVar,""); } } else if (isBigBed(db, table, curTrack, ctLookupName)) { struct sqlFieldType *ftList = bigBedListFieldsAndTypes(ct->tdb, NULL); printSqlFieldListAsControlTable(ftList, db, table, ct->tdb, FALSE); } else if (isBamTable(table)) { struct sqlFieldType *ftList = bamListFieldsAndTypes(); printSqlFieldListAsControlTable(ftList, db, table, ct->tdb, FALSE); } else if (isVcfTable(table, NULL)) { struct sqlFieldType *ftList = vcfListFieldsAndTypes(); printSqlFieldListAsControlTable(ftList, db, table, ct->tdb, FALSE); } else { if (ct->fieldCount >= 3) { stringFilterOption(db, table, "chrom", " AND "); integerFilter(db, table, "chromStart", "chromStart", " AND "); integerFilter(db, table, "chromEnd", "chromEnd", " AND "); } if (ct->fieldCount >= 4) { stringFilterOption(db, table, "name", " AND "); } if (ct->fieldCount >= 5) { numericFilter(db, table, "score", "score", " AND "); } if (ct->fieldCount >= 6) { stringFilterOption(db, table, "strand", " AND "); } if (ct->fieldCount >= 8) { integerFilter(db, table, "thickStart", "thickStart", " AND "); integerFilter(db, table, "thickEnd", "thickEnd", " AND "); } if (ct->fieldCount >= 12) { integerFilter(db, table, "blockCount", "blockCount", " AND "); } /* These are not bed fields, just extra constraints that we offer: */ if (ct->fieldCount >= 3) { integerFilter(db, table, "chromLength", "(chromEnd - chromStart)", (ct->fieldCount >= 8) ? " AND " : ""); } if (ct->fieldCount >= 8) { integerFilter( db, table, "thickLength", "(thickEnd - thickStart)", " AND "); eqFilterOption(db, table, "compareStarts","chromStart","thickStart", " AND "); eqFilterOption(db, table, "compareEnds", "chromEnd", "thickEnd", ""); } } puts("</TABLE>"); if (ct->wiggle || isBigWigTable(table) || isBamTable(table) || isVcfTable(table, NULL)) { char *name; hPrintf("<TABLE BORDER=0><TR><TD> Limit data output to: \n"); name = filterFieldVarName("ct", table, "_", filterMaxOutputVar); cgiMakeDropList(name, maxOutMenu, maxOutMenuSize, cartUsualString(cart, name, maxOutMenu[0])); hPrintf(" lines</TD></TR></TABLE>\n"); } hPrintf("<BR>\n"); cgiMakeButton(hgtaDoFilterSubmit, "submit"); hPrintf(" "); cgiMakeButton(hgtaDoMainPage, "cancel"); }
void showMainControlTable(struct sqlConnection *conn) /* Put up table with main controls for main page. */ { struct grp *selGroup; boolean isWig = FALSE, isPositional = FALSE, isMaf = FALSE, isBedGr = FALSE, isChromGraphCt = FALSE, isPal = FALSE, isArray = FALSE, isBam = FALSE, isVcf = FALSE, isHalSnake = FALSE, isLongTabix = FALSE; boolean gotClade = hGotClade(); struct hTableInfo *hti = NULL; hPrintf("<TABLE BORDER=0>\n"); /* Print clade, genome and assembly line. */ { if (gotClade) { hPrintf("<TR><TD><B>clade:</B>\n"); printCladeListHtml(hGenome(database), onChangeClade()); nbSpaces(3); hPrintf("<B>genome:</B>\n"); printGenomeListForCladeHtml(database, onChangeOrg()); } else { hPrintf("<TR><TD><B>genome:</B>\n"); printGenomeListHtml(database, onChangeOrg()); } nbSpaces(3); hPrintf("<B>assembly:</B>\n"); printAssemblyListHtml(database, onChangeDb()); hPrintf("</TD></TR>\n"); } /* Print group and track line. */ { hPrintf("<TR><TD>"); selGroup = showGroupField(hgtaGroup, onChangeGroupOrTrack(), conn, hAllowAllTables()); nbSpaces(3); curTrack = showTrackField(selGroup, hgtaTrack, onChangeGroupOrTrack(), FALSE); nbSpaces(3); boolean hasCustomTracks = FALSE; struct trackDb *t; for (t = fullTrackList; t != NULL; t = t->next) { if (isCustomTrack(t->table)) { hasCustomTracks = TRUE; break; } } hOnClickButton("document.customTrackForm.submit();return false;", hasCustomTracks ? CT_MANAGE_BUTTON_LABEL : CT_ADD_BUTTON_LABEL); hPrintf(" "); if (hubConnectTableExists()) hOnClickButton("document.trackHubForm.submit();return false;", "track hubs"); hPrintf("</TD></TR>\n"); } /* Print table line. */ { hPrintf("<TR><TD>"); curTable = showTableField(curTrack, hgtaTable, TRUE); if (isHubTrack(curTable) || (strchr(curTable, '.') == NULL)) /* In same database */ { hti = getHti(database, curTable, conn); isPositional = htiIsPositional(hti); } isLongTabix = isLongTabixTable( curTable); isBam = isBamTable( curTable); isVcf = isVcfTable(curTable, NULL); isWig = isWiggle(database, curTable); if (isBigWigTable(curTable)) { isPositional = TRUE; isWig = TRUE; } isHalSnake = isHalTable( curTable); isMaf = isMafTable(database, curTrack, curTable); isBedGr = isBedGraph(curTable); isArray = isMicroarray(curTrack, curTable); struct trackDb *tdb = findTdbForTable(database, curTrack, curTable, ctLookupName); isPal = isPalCompatible(conn, tdb, curTable); nbSpaces(1); if (isCustomTrack(curTable)) { isChromGraphCt = isChromGraph(tdb); } cgiMakeButton(hgtaDoSchema, "describe table schema"); hPrintf("</TD></TR>\n"); } if (curTrack == NULL) { struct trackDb *tdb = hTrackDbForTrack(database, curTable); struct trackDb *cTdb = hCompositeTrackDbForSubtrack(database, tdb); if (cTdb) curTrack = cTdb; else curTrack = tdb; isMaf = isMafTable(database, curTrack, curTable); } /* Region line */ { char *regionType = cartUsualString(cart, hgtaRegionType, hgtaRegionTypeGenome); char *range = cartUsualString(cart, hgtaRange, ""); if (isPositional) { boolean doEncode = FALSE; if (!trackHubDatabase(database)) doEncode = sqlTableExists(conn, "encodeRegions"); hPrintf("<TR><TD><B>region:</B>\n"); /* If regionType not allowed force it to "genome". */ if ((sameString(regionType, hgtaRegionTypeUserRegions) && userRegionsFileName() == NULL) || (sameString(regionType, hgtaRegionTypeEncode) && !doEncode)) regionType = hgtaRegionTypeGenome; // Is "genome" is not allowed because of tdb 'tableBrowser noGenome'? boolean disableGenome = ((curTrack && cartTrackDbIsNoGenome(database, curTrack->table)) || (curTable && cartTrackDbIsNoGenome(database, curTable))); // If "genome" is selected but not allowed, force it to "range": if (sameString(regionType, hgtaRegionTypeGenome) && disableGenome) regionType = hgtaRegionTypeRange; jsTrackingVar("regionType", regionType); if (disableGenome) { makeRegionButtonExtraHtml(hgtaRegionTypeGenome, regionType, "DISABLED"); hPrintf(" <span"NO_GENOME_CLASS">genome (unavailable for selected track)</span>" " "); } else { makeRegionButton(hgtaRegionTypeGenome, regionType); hPrintf(" genome "); } if (doEncode) { makeRegionButton(hgtaRegionTypeEncode, regionType); hPrintf(" ENCODE Pilot regions "); } makeRegionButton(hgtaRegionTypeRange, regionType); hPrintf(" position "); hPrintf("<INPUT TYPE=TEXT NAME=\"%s\" SIZE=26 VALUE=\"%s\" onFocus=\"%s\">\n", hgtaRange, range, jsRadioUpdate(hgtaRegionType, "regionType", "range")); cgiMakeButton(hgtaDoLookupPosition, "lookup"); hPrintf(" "); if (userRegionsFileName() != NULL) { makeRegionButton(hgtaRegionTypeUserRegions, regionType); hPrintf(" defined regions "); cgiMakeButton(hgtaDoSetUserRegions, "change"); hPrintf(" "); cgiMakeButton(hgtaDoClearUserRegions, "clear"); } else cgiMakeButton(hgtaDoSetUserRegions, "define regions"); hPrintf("</TD></TR>\n"); } else { /* Need to put at least stubs of cgi variables in for JavaScript to work. */ jsTrackingVar("regionType", regionType); cgiMakeHiddenVar(hgtaRange, range); cgiMakeHiddenVar(hgtaRegionType, regionType); } /* Select identifiers line (if applicable). */ if (!isWig && getIdField(database, curTrack, curTable, hti) != NULL) { hPrintf("<TR><TD><B>identifiers (names/accessions):</B>\n"); cgiMakeButton(hgtaDoPasteIdentifiers, "paste list"); hPrintf(" "); cgiMakeButton(hgtaDoUploadIdentifiers, "upload list"); if (identifierFileName() != NULL) { hPrintf(" "); cgiMakeButton(hgtaDoClearIdentifiers, "clear list"); } hPrintf("</TD></TR>\n"); } } /* microarray options */ /* button for option page here (median/log-ratio, etc) */ /* Filter line. */ { hPrintf("<TR><TD><B>filter:</B>\n"); if (anyFilter()) { cgiMakeButton(hgtaDoFilterPage, "edit"); hPrintf(" "); cgiMakeButton(hgtaDoClearFilter, "clear"); if (isWig || isBedGr) wigShowFilter(conn); } else { cgiMakeButton(hgtaDoFilterPage, "create"); } hPrintf("</TD></TR>\n"); } /* Composite track subtrack merge line. */ boolean canSubtrackMerge = (curTrack && tdbIsComposite(curTrack) && !isBam && !isVcf && !isLongTabix); if (canSubtrackMerge) { hPrintf("<TR><TD><B>subtrack merge:</B>\n"); if (anySubtrackMerge(database, curTable)) { cgiMakeButton(hgtaDoSubtrackMergePage, "edit"); hPrintf(" "); cgiMakeButton(hgtaDoClearSubtrackMerge, "clear"); } else { cgiMakeButton(hgtaDoSubtrackMergePage, "create"); } hPrintf("</TD></TR>\n"); } /* Intersection line. */ if (isPositional) { if (anyIntersection()) { hPrintf("<TR><TD><B>intersection with %s:</B>\n", cartString(cart, hgtaIntersectTable)); cgiMakeButton(hgtaDoIntersectPage, "edit"); hPrintf(" "); cgiMakeButton(hgtaDoClearIntersect, "clear"); hPrintf("</TD></TR>\n"); } else if (canIntersect(database, curTable)) { hPrintf("<TR><TD><B>intersection:</B>\n"); cgiMakeButton(hgtaDoIntersectPage, "create"); hPrintf("</TD></TR>\n"); } } /* Correlation line. */ struct trackDb *tdb = findTdbForTable(database, curTrack, curTable, ctLookupName); if (correlateTrackTableOK(tdb, curTable)) { char *table2 = cartUsualString(cart, hgtaCorrelateTable, "none"); hPrintf("<TR><TD><B>correlation:</B>\n"); if (differentWord(table2, "none") && strlen(table2) && ! isNoGenomeDisabled(database, table2)) { struct grp *groupList = fullGroupList; struct grp *selGroup = findSelectedGroup(groupList, hgtaCorrelateGroup); struct trackDb *tdb2 = findSelectedTrack(fullTrackList, selGroup,hgtaCorrelateTrack); if (tdbIsComposite(tdb2)) { struct slRef *tdbRefList = trackDbListGetRefsToDescendantLeaves(tdb2->subtracks); struct slRef *tdbRef; for (tdbRef = tdbRefList; tdbRef != NULL; tdbRef = tdbRef->next) { struct trackDb *subTdb = tdbRef->val; if (sameString(table2, subTdb->table)) { tdb2 = subTdb; break; } } slFreeList(&tdbRefList); } cgiMakeButton(hgtaDoCorrelatePage, "calculate"); cgiMakeButton(hgtaDoClearCorrelate, "clear"); if (tdb2 && tdb2->shortLabel) hPrintf(" (with: %s)", tdb2->shortLabel); #ifdef NOT_YET /* debugging dbg vvvvv */ if (curTrack && curTrack->type) /* dbg */ { hPrintf("<BR> (debug: '%s', '%s(%s)')", curTrack->type, tdb2->type, table2); } /* debugging debug ^^^^^ */ #endif } else cgiMakeButton(hgtaDoCorrelatePage, "create"); hPrintf("</TD></TR>\n"); } /* Print output type line. */ showOutputTypeRow(isWig, isBedGr, isPositional, isMaf, isChromGraphCt, isPal, isArray, isHalSnake); /* Print output destination line. */ { char *compressType = cartUsualString(cart, hgtaCompressType, textOutCompressNone); char *fileName = cartUsualString(cart, hgtaOutFileName, ""); hPrintf("<TR><TD>\n"); hPrintf("<B>output file:</B> "); cgiMakeTextVar(hgtaOutFileName, fileName, 29); hPrintf(" (leave blank to keep output in browser)</TD></TR>\n"); hPrintf("<TR><TD>\n"); hPrintf("<B>file type returned: </B>"); cgiMakeRadioButton(hgtaCompressType, textOutCompressNone, sameWord(textOutCompressNone, compressType)); hPrintf(" plain text  "); cgiMakeRadioButton(hgtaCompressType, textOutCompressGzip, sameWord(textOutCompressGzip, compressType)); hPrintf(" gzip compressed"); hPrintf("</TD></TR>\n"); } hPrintf("</TABLE>\n"); /* Submit buttons. */ { hPrintf("<BR>\n"); if (isWig || isBam || isVcf || isLongTabix) { char *name; extern char *maxOutMenu[]; char *maxOutput = maxOutMenu[0]; if (isCustomTrack(curTable)) name=filterFieldVarName("ct", curTable, "_", filterMaxOutputVar); else name=filterFieldVarName(database,curTable, "_",filterMaxOutputVar); maxOutput = cartUsualString(cart, name, maxOutMenu[0]); if (isWig) hPrintf( "<I>Note: to return more than %s lines, change the filter setting" " (above). The entire data set may be available for download as" " a very large file that contains the original data values (not" " compressed into the wiggle format) -- see the Downloads page." "</I><BR>", maxOutput); else if (isBam || isVcf || isLongTabix) hPrintf( "<I>Note: to return more than %s lines, change the filter setting" " (above). Please consider downloading the entire data from our Download pages." "</I><BR>", maxOutput); } else if (anySubtrackMerge(database, curTable) || anyIntersection()) { hPrintf("<I>Note: The all fields and selected fields output formats " "are not available when a%s has been specified.</I><BR>", canSubtrackMerge ? " subtrack merge or intersection" : "n intersection"); } cgiMakeButton(hgtaDoTopSubmit, "get output"); hPrintf(" "); if (isPositional || isWig) { cgiMakeButton(hgtaDoSummaryStats, "summary/statistics"); hPrintf(" "); } #ifdef SOMETIMES hPrintf(" "); cgiMakeButton(hgtaDoTest, "test"); #endif /* SOMETIMES */ } hPrintf("<P>" "To reset <B>all</B> user cart settings (including custom tracks), \n" "<A HREF=\"/cgi-bin/cartReset?destination=%s\">click here</A>.\n", getScriptName()); }