cf56097b1e6a5f61ba03b882cdf885a913c08c48 markd Wed Dec 14 11:29:32 2016 -0800 remove status field from gencode hgc display; this is being dropped by gencode and ensembl diff --git src/hg/hgc/gencodeClick.c src/hg/hgc/gencodeClick.c index 4e3e14c..2f7a2fa 100644 --- src/hg/hgc/gencodeClick.c +++ src/hg/hgc/gencodeClick.c @@ -321,64 +321,56 @@ printf(" "); if (geneLabel != NULL) prApprisTdAnchor(transAttrs->geneId, geneLabel, apprisGeneUrl); else printf(" "); printf("\n"); } static void writeBasicInfoHtml(struct sqlConnection *conn, struct trackDb *tdb, char *gencodeId, struct genePred *transAnno, struct wgEncodeGencodeAttrs *transAttrs, int geneChromStart, int geneChromEnd, struct wgEncodeGencodeGeneSource *geneSource, struct wgEncodeGencodeTranscriptSource *transcriptSource, struct wgEncodeGencodeTag *tags, bool haveTsl, struct wgEncodeGencodeTranscriptionSupportLevel *tsl) /* write basic HTML info for all genes */ { -/* - * notes: - * - According to Steve: `status' is not the same for ensembl and havana. So either avoid displaying it - * or display it as `automatic status' or `manual status'. - */ - // basic gene and transcript information printf("\n"); printf("\n"); printf("\n"); printf("\n"); printf("\n"); printf("\n"); printf("\n", transAnno->strand); printf("\n", gencodeBiotypesUrl, transAttrs->transcriptType, transAttrs->geneType); -printf("\n", transAttrs->transcriptStatus, transAttrs->geneStatus); - printf("\n", getLevelDesc(transAttrs->level), transAttrs->level); printf("\n", getMethodDesc(transcriptSource->source), getMethodDesc(geneSource->source)); if (haveTsl) { char *tslDesc = getSupportLevelDesc(tsl); printf("\n", tslDesc, tslDesc); } printf("\n"); printf("
TranscriptGene
Gencode id"); prTdEnsIdAnchor(transAttrs->transcriptId, ensemblTranscriptIdUrl); prTdEnsIdAnchor(transAttrs->geneId, ensemblGeneIdUrl); printf("
HAVANA manual id"); prTdEnsIdAnchor(transAttrs->havanaTranscriptId, vegaTranscriptIdUrl); prTdEnsIdAnchor(transAttrs->havanaGeneId, vegaGeneIdUrl); printf("
Position"); printf(""); writePosLink(transAnno->chrom, transAnno->txStart, transAnno->txEnd); printf(""); writePosLink(transAnno->chrom, geneChromStart, geneChromEnd); printf("
Strand%s
Biotype%s%s
Status%s%s
Annotation Level%s (%d)
Annotation Method%s%s
Transcription Support Level%s
HGNC gene symbol"); prExtIdAnchor(transAttrs->geneName, hgncUrl); printf("
CCDS"); if (!isEmpty(transAttrs->ccdsId))