Tyler Funnell

I have this same problem with the latest version of biomartr. This is happening on a shared compute server. The actual error message I receive is: ``` > meta.retrieval(db="genbank", kingdom="archaea")...

I'm able to connect to the server using ftp: ``` ❯ ftp ftp.ncbi.nlm.nih.gov (base) Trying 130.14.250.10... Connected to ftp.ncbi.nlm.nih.gov (130.14.250.10). 220- ``` can you think of anything else I'd need...

I've added another commit addressing your comments. Thanks for the feedback!

@alphapapa I understand completely, thanks for taking the time to maintain this wonderful package and considering my pull request! I've squashed the commits and added a line to the readme.

@RaphaelS1 would this issue be better placed in another repo, or closed? Also, are there immediate plans to support competing risk tasks? And if so, would that effort be something...

The delay comes from the invocation of `shell-command-to-string` here: https://github.com/spudlyo/clipetty/blob/01b39044b9b65fa4ea7d3166f8b1ffab6f740362/clipetty.el#L96 Possibly due to executing my shell's config file each time

This is a related issue https://github.com/bbatsov/projectile/issues/1044

Using `.env` files also seems to be a popular and cross-language way of storing env variables for a project. There is an R package for it here https://github.com/gaborcsardi/dotenv

Here you go! Please forgive the very late response. [species_abundance.csv](https://github.com/jsevo/taxumap/files/8583878/species_abundance.csv) [metaphlan_species_taxonomy.csv](https://github.com/jsevo/taxumap/files/8583879/metaphlan_species_taxonomy.csv)

Hello @AfZheng126, I'm also having issues with memory and runtime for some samples. A difficult sample will run for several hours before getting killed for running out of memory (e.g....