Fernando Puente-Sánchez

Conda stuck solving environment when installing v1.5

8

If this happens, just use mamba instead of conda to create the environment (I use it for everything nowadays, so I didn't notice the problems with the original conda command)....

If you get this error, please reinstall the squeezemeta package priorizing `conda-forge` over `bioconda`. It would be `conda create -n SqueezeMeta -c conda-forge -c bioconda -c fpusan squeezemeta`. We will...

Update SQMtools (and R recommendation) to >4.0

1

This would involve - Checking that SQMtools works in R>4.0.0 - Checking that DAStool R package works with R>4.0.0 - Updating / testing the conda recipe to include R>4.0.0 -...

"ERROR: Database check failed" with snpEff and possible fix

5

Thanks for the nice software! Hopefully this is not duplicated. I got this error when trying to run snippy, installed with mamba, on a gbk reference. ``` WARNING_GENE_NOT_FOUND: Too many...

The problem seems to be related to variable $resultpath being defined as "." in `SqueezeMeta/lib/SQM_reads/lca_reads.pl`

"zip file is corrupt" when loading a zipped project into SQMtools

1

This happens for certain projects when running SQMtools on certain R versions. I suspect it's related to R's internal unzip engine not being able to deal with files greater than...

"longer object length is not a multiple of shorter object length" when running ancombc2

3

First, thanks for developing and maintaining this amazing tool! I got warnings while running `ancombc2` with the following command. These happened with my dataset, but not with the example datasets...

Hi and thanks for the continued development and maintenance of DIAMOND. I'm interested in speeding up searches against NCBI nr. Ideally I would like to get only the top 10-20...