From 84c30a8d3403449baad721b712edde555d707489 Mon Sep 17 00:00:00 2001
From: Tim O'Donnell <timodonnell@gmail.com>
Date: Fri, 3 Jan 2020 16:35:48 -0500
Subject: [PATCH] debugging
---
downloads-generation/data_mass_spec_benchmark/GENERATE.sh | 4 +++-
1 file changed, 3 insertions(+), 1 deletion(-)
diff --git a/downloads-generation/data_mass_spec_benchmark/GENERATE.sh b/downloads-generation/data_mass_spec_benchmark/GENERATE.sh
index 21d18639..474768ea 100755
--- a/downloads-generation/data_mass_spec_benchmark/GENERATE.sh
+++ b/downloads-generation/data_mass_spec_benchmark/GENERATE.sh
@@ -96,7 +96,8 @@ else
fi
# Write out and process peptides.
-for subset in all
+#for subset in all
+for subset in chr1
do
if [ "$2" == "reuse-all" ]
then
@@ -133,6 +134,7 @@ do
--out "$OUT_DIR" \
--worker-log-dir "$SCRATCH_DIR/$DOWNLOAD_NAME" \
--cluster-script-prefix-path $SCRIPT_DIR/cluster_submit_script_header.mssm_hpc.nogpu.lsf \
+ --max-peptides 1000 \
--reuse-predictions "$REUSE" $EXTRA_ARGS
# Run netmhcpan4
--
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