Daniel McDonald

icon indicating a website link http://wasade.github.io icon indicating an email [email protected]

icon company UCSD - Dept. of Pediatrics icon location San Diego, CA icon location Programmer analyst, Scientific Director (American Gut / Microsetta Initiative) | Knight Lab | UC San Diego Dept. Pediatrics

Results 305 comments of Daniel McDonald

BUG : too many open files when splitting on mac

Please note in the README

Support for highlighting path between selected nodes

Would this be the node-to-node distance, or would this gather tip-to-tip distances from the tips of the selected clades? > On Aug 11, 2021, at 1:21 PM, Yoshiki Vázquez Baeza...

log file special mark if not thread

This can be achieved by calling `multiprocess.current_process().name` however, the first issue is that them logger is not being used by worker threads. Python's `logging` module is not multiprocess aware. I...

log file special mark if not thread

I'm unassigning this from milestone "version 1.0". Please reassign if critical for first release

Find LCA from selected features

Going by sample selection could be cool too. For example, select two sets of points, and highlight on the tree the feature difference (or intersection or union) between the sets....

Clarification about ID type in the docs for Table.update_ids

That is unusual, would it be possible to add "anndata" to the conda install in gh actions? It's present in the bioconda channel. I wonder if pip and conda are...

Clarification about ID type in the docs for Table.update_ids

Thanks for the bump on this. Is this PR good to go? I was out all summer on leave and missed the follow up here

Clarification about ID type in the docs for Table.update_ids

Thanks!

Clarification about ID type in the docs for Table.update_ids

I don't know the implications of pinning anndata. Would that be bad?

Clarification about ID type in the docs for Table.update_ids

We can account for that on the next release, but I do not have a timeline at the moment for that