Sohrab
Sohrab
I'm getting a similar error while converting a scanpy compatible anndata object to a seurat object: ``` Warning: Unknown file type: h5ad Warning: 'assay' not set, setting to 'RNA' Creating...
similar to @markdanese, configuring `~/.R/Makevars` works for getting `data.table` to recognize openMP but not for `fst`. I have also tried instructions #242, see comments by [`mimaque`](https://github.com/fstpackage/fst/issues/242#issuecomment-780101010) to no avail. Would...
Just adding a bit more detail. Here's the result after running `install.packages('fst', type = 'source')`: ``` trying URL 'https://mirror.las.iastate.edu/CRAN/src/contrib/fst_0.9.4.tar.gz' Content type 'application/x-gzip' length 564903 bytes (551 KB) ================================================== downloaded 551...
And the output: ``` > library(fst) fst package v0.9.4 (OpenMP was not detected, using single threaded mode) ```
A quick hack to get it to work - ensure that g++ is called with `-fopenmp`, for my `Makevars` that means: ``` CXX1X=/usr/local/gfortran/bin/g++ -fopenmp CXX98=/usr/local/gfortran/bin/g++ -fopenmp CXX11=/usr/local/gfortran/bin/g++ -fopenmp CXX14=/usr/local/gfortran/bin/g++ -fopenmp...
Similar error on Big Sur with the latest version. On preview, crashes with colorize.sh failed with code 101.
Okay, got it thanks. Could you confirm that the columns of `X_cnv` are `bins` of size `window_size` please?
Hi, It’d be great to add a method to allow the computation and plotting of a module. Something like the plot gene trends function, but for a (potentially pre-computed) score....