Commits for angie

9ee0dbb8ed4ffb54cdd9fb8bb473548ae9cf276b Wed Mar 20 15:16:13 2024 -0700

M. tuberculosis gets lots of BLAT alignments; tweak warning message, make sure we keep only the first.
- src/hg/hgPhyloPlace/vcfFromFasta.c - lines changed 6, context: html, text, full: html, text

66a1a82f72f9f3295bb4007b1b5681013976a694 Wed Mar 20 15:20:27 2024 -0700

Overhaul struct sampleMetadata: instead of one struct member per anticipated column, use an array of column values and a shared array of column names. As we support more species, the available metadata gets more divergent so this needs to be more general. We still need to make aggregation of attributes on branches more generic / config-driven.
- src/hg/hgPhyloPlace/phyloPlace.c - lines changed 125, context: html, text, full: html, text
- src/hg/hgPhyloPlace/phyloPlace.h - lines changed 21, context: html, text, full: html, text
- src/hg/hgPhyloPlace/treeToAuspiceJson.c - lines changed 56, context: html, text, full: html, text

b4460ce8ea85171693750dd217ba805870b0b93d Thu Mar 21 08:54:51 2024 -0700

Branch attributes (used for coloring branches by majority lineage/clade) are now specified by a new config setting branchAttributes instead of being hardcoded.
- src/hg/hgPhyloPlace/treeToAuspiceJson.c - lines changed 136, context: html, text, full: html, text