Mercurial > repos > ebi-gxa > score_genes_aucell
diff get_test_data.sh @ 0:1e8697931d73 draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c8c39f14eeee6e7a6d097fd0cb9430b12793eb8b
author | ebi-gxa |
---|---|
date | Thu, 09 Nov 2023 11:36:08 +0000 |
parents | |
children | c700f0381e84 |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/get_test_data.sh Thu Nov 09 11:36:08 2023 +0000 @@ -0,0 +1,21 @@ +#!/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