Add s5cmd to pixi dev env

Author: luizirber

machine/archive/s3_sync.sh

@@ -5,7 +5,7 @@ set -ex
 mkdir -p update_logs/
 
 # using s5cmd
-pixi exec s5cmd --stat --json sync --size-only 's3://wort-sra/*' wort-sra/ &> update_logs/"$(date +%Y%m%d)_sra" &
-pixi exec s5cmd --stat --json sync --size-only 's3://wort-genomes/*' wort-genomes/ &> update_logs/"$(date +%Y%m%d)_genomes" &
-pixi exec s5cmd --stat --json sync --size-only 's3://wort-img/*' wort-img/ &> update_logs/"$(date +%Y%m%d)_img" &
+pixi run 5cmd --stat --json sync --size-only 's3://wort-sra/*' wort-sra/ &> update_logs/"$(date +%Y%m%d)_sra" &
+pixi run s5cmd --stat --json sync --size-only 's3://wort-genomes/*' wort-genomes/ &> update_logs/"$(date +%Y%m%d)_genomes" &
+pixi run s5cmd --stat --json sync --size-only 's3://wort-img/*' wort-img/ &> update_logs/"$(date +%Y%m%d)_img" &
 wait

machine/archive/scripts/s3_metadata.sh

@@ -3,8 +3,8 @@
 set -ex
 
 # using s5cmd
-pixi exec s5cmd ls s3://wort-genomes/sigs/ > filelists/genomes_20250829.s3 &
-pixi exec s5cmd ls s3://wort-img/sigs/ > filelists/img_20250829.s3 &
-pixi exec s5cmd ls s3://wort-sra/sigs/ > filelists/sra_20250829.s3 &
+#pixi run s5cmd ls s3://wort-genomes/sigs/ > filelists/genomes_20250829.s3 &
+pixi run s5cmd ls s3://wort-img/sigs/ > filelists/img_20250829.s3 &
+#pixi run s5cmd ls s3://wort-sra/sigs/ > filelists/sra_20250829.s3 &
 
 wait