Angie Hinrichs

It looks like there might have been a temporary problem with our "assembly hub" for monkeypox. If you go to My Data -> Track Hubs in the top blue bar...

Yes, it should be straightforward.

OK, I believe this is working on the test server: https://genome-test.gi.ucsc.edu/cgi-bin/hgPhyloPlace (Also, @corneliusroemer, the extra Auspice config stuff you showed me, entropy panel and filters) It will take a few...

Sorry about that! I will take a look... and thanks for dev.usher.bio, awesome!

Those IDs resolved to these tree names: ``` Canada/MB-CPL-515676/2022|EPI_ISL_15199928|2022-09-06 Canada/MB-CPL-515675/2022|EPI_ISL_15199927|2022-09-06 USA/VA-CDC-QDX41426322/2022|OP542979.1|2022-09-12 ``` -- and then a matUtils command was exec'd to get subtrees, but it died, still trying to figure...

Sorry, it was a change to my command-line conda environment that I didn't realize would affect the web server's matUtils executable (its libprotobuf shared object file disappeared -- because it...

Thanks for the reports. > 1. ... XBC.1.6 ... position 28271... deletion UShER ignores deletions and only uses substitutions. Before adding a sequence to the tree, I mask deleted positions...

Yes, thank you for pointing that out @jbloom! I will update it.

Thanks for reporting, I'll take a look. It might take a while to fix (especially on the main site since there is a one to four week release cycle delay...

Wonderful, thanks @chaoran-chen, and as always, so fast! @corneliusroemer, does the query work better for you now?