v476 Genome Browser Software

This is the v476 release of the UCSC Genome Browser. A summary of the relevant code changes includes:

• Feaure ‘Right click > hide other tracks’ and ‘hide’ now hide the parent instead of the last child. This means that you can no longer have tracks in the track list that have no subtracks shown.
• First major commit of hubspace.
• Update browserSetup.sh after running it on Rocky 9.5 in vm on hgwdev.
• Fix for https cert locations on Ubuntu/Debian, and updated https whitelist with a fresh scan of last year's log of the RR and official mirrors.
• Various fixes to address compiling on the new Rocky 9 OS.
• Edge and Safari have a 32k cart string size limit. We now work around that.
• Fixed code that chops strings so as not to call ArraySize with NULL.
• Ported hgBeacon to python3.
• Make sure jquery library is included in iframes for hubCheck on the hub development tab.
• Work on making HAL build-compatible.
• Add a version of stringify (stringifyEz) that is in an interpreted language so it does not have to be built first and in the path. Useful if building just parts of the tree.
• Fixing issues in the source tree for the transition to newer linux version, more static libraries, fewer dynamic libraries.
• Preparations are underway to host all of the GenArk assembly hubs in the /gbdb/ hierarchy to eliminate the dependency on hgdownload service.
• Fixed up crash bug in findMotif program when missing arguments.
• Improvements to wuhCor1 big tree build process.