From 254751899d18f438780cd278dc0308826f069332 Mon Sep 17 00:00:00 2001
From: "Thomas A. Christensen II" <25492070+MillironX@users.noreply.github.com>
Date: Tue, 30 Mar 2021 08:52:23 -0600
Subject: [PATCH] Fix hardcoded task number to unzip fastqs

---
 ont/ont-demux | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/ont/ont-demux b/ont/ont-demux
index f551131..caf7b22 100644
--- a/ont/ont-demux
+++ b/ont/ont-demux
@@ -14,7 +14,7 @@ OUTNAME="$RUNNAME"_demux
 guppy_barcoder --input_path "$RUNNAME" --save_path "$OUTNAME" --recursive --records_per_fastq 0 --compress_fastq --worker_threads "$NUMCPU" --device cuda:all:100%
 
 # Unzip the fastqs
-parallel --gnu -j12 --eta gunzip ::: "$OUTNAME"/*/*.fastq.gz
+parallel --gnu -j"$NUMCPU" --eta gunzip ::: "$OUTNAME"/*/*.fastq.gz
 
 # Squish them together
 cat "$OUTNAME"/*/*.fastq > "$OUTNAME"/"$RUNNAME".fastq