e9c3757c29ec6d08b6232e0a671fe5970bb58e2e lrnassar Wed Feb 18 19:21:54 2026 -0800 Feedback from CR, refs #37124 diff --git src/hg/lib/trackHub.c src/hg/lib/trackHub.c index 846159a0f7f..4be26e187de 100644 --- src/hg/lib/trackHub.c +++ src/hg/lib/trackHub.c @@ -1435,43 +1435,44 @@ /* RMH: Added support for bigRmsk track hub data type */ else if (startsWithWord("bigNarrowPeak", type) || startsWithWord("bigBed", type) || startsWithWord("bigGenePred", type) || startsWithWord("bigPsl", type)|| startsWithWord("bigChain", type)|| startsWithWord("bigMaf", type) || startsWithWord("bigBarChart", type) || startsWithWord("bigInteract", type) || startsWithWord("bigLolly", type) || startsWithWord("bigRmsk",type)) { /* Just open and close to verify file exists and is correct type. */ struct bbiFile *bbi = bigBedFileOpen(bigDataUrl); char *typeString = cloneString(type); nextWord(&typeString); if (startsWithWord("bigBed", type) && (typeString != NULL)) { unsigned numFields = sqlUnsigned(nextWord(&typeString)); if (numFields > bbi->fieldCount) - errAbort("bigBed file '%s' has %d fields, but track \"%s\" declares 'type bigBed %d'. Either regenerate the bigBed with the correct number of fields, or change the type line to 'type bigBed %d' to match the file.", bigDataUrl, bbi->fieldCount, trackHubSkipHubName(tdb->track), numFields, bbi->fieldCount); + errAbort("bigBed file '%s' has %d fields, but track \"%s\" declares 'type bigBed %d'. Either regenerate the bigBed with the correct number of fields, or change the type line to match the file's field count.", bigDataUrl, bbi->fieldCount, trackHubSkipHubName(tdb->track), numFields); } bbiFileClose(&bbi); } else if (startsWithWord("vcfTabix", type) || startsWithWord("vcfPhasedTrio", type)) { /* Just open and close to verify file exists and is correct type. */ struct vcfFile *vcf = vcfTabixFileAndIndexMayOpen(bigDataUrl, bigDataIndex, NULL, 0, 0, 1, 1); if (vcf == NULL) // Warnings already indicated whether the tabix file is missing etc. errAbort("Couldn't open %s and/or its tabix index (.tbi) file for track %s. " "Both the .vcf.gz file and a matching .vcf.gz.tbi index must be publicly accessible " - "at the same URL path. Generate the index with: tabix -p vcf yourFile.vcf.gz", + "at the same URL path. Generate the index with: tabix -p vcf yourFile.vcf.gz " + "See https://genome.ucsc.edu/goldenPath/help/vcf.html", bigDataUrl, trackHubSkipHubName(tdb->track)); vcfFileFree(&vcf); } else if (startsWithWord("bam", type)) { bamFileAndIndexMustExist(bigDataUrl, bigDataIndex); } else if (startsWithWord("longTabix", type)) { struct bedTabixFile *btf = bedTabixFileMayOpen(bigDataUrl, NULL, 0, 0); if (btf == NULL) errAbort("Couldn't open %s and/or its tabix index (.tbi) file for track %s. " "Both the file and a matching .tbi index must be publicly accessible " "at the same URL path.", bigDataUrl, trackHubSkipHubName(tdb->track)); bedTabixFileClose(&btf);