Mercurial > repos > ebi-gxa > score_genes_aucell
view get_test_data.sh @ 3:e887a7e8c5b4 draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 11fb36a94b8262ef8e78f1c6dd46c4146eb59341
author | ebi-gxa |
---|---|
date | Mon, 15 Apr 2024 13:20:21 +0000 |
parents | c700f0381e84 |
children |
line wrap: on
line source
#!/usr/bin/env bash BASENAME_FILE='mito_counted_anndata.h5ad' MTX_LINK='https://zenodo.org/record/7053673/files/Mito-counted_AnnData' # convenience for getting data function get_data { local link=$1 local fname=$2 if [ ! -f $fname ]; then echo "$fname not available locally, downloading.." wget -O $fname --retry-connrefused --waitretry=1 --read-timeout=20 --timeout=15 -t 3 $link fi } # get matrix data mkdir -p test-data pushd test-data get_data $MTX_LINK $BASENAME_FILE # Download input anndata for decoupler-pathway_inference BASENAME_FILE='pbmc3k_processed.h5ad' MTX_LINK='https://zenodo.org/records/3752813/files/pbmc3k_processed.h5ad' get_data $MTX_LINK $BASENAME_FILE # Download output anndata for decoupler-pathway_inference BASENAME_FILE='test.h5ad' MTX_LINK='https://zenodo.org/records/10401958/files/test.h5ad' get_data $MTX_LINK $BASENAME_FILE