From 08266d809593e15b96d6dfca55c030dfb8ac5934 Mon Sep 17 00:00:00 2001
From: jgugliel <julien.guglielmini@pasteur.fr>
Date: Fri, 24 Jun 2022 15:46:39 +0200
Subject: [PATCH] Automatic -a parameter; option to skip memory check; output
improvement
---
wGRR | 14 +++++++-------
1 file changed, 7 insertions(+), 7 deletions(-)
diff --git a/wGRR b/wGRR
index ecbaeb9..46a7f53 100755
--- a/wGRR
+++ b/wGRR
@@ -27,19 +27,19 @@ display_usage() {
echo "${bold}OPTIONS:${normal}"
echo " -p <string> Path to the mmseqs executable."
echo " e.g. /usr/local/bin"
- echo " by default the mmseqs binary found in the \"\$PATH\" environment variable will"
- echo " be used, if there is one."
- echo " If wGRR is used on Maestro, MMSeqs will be automatically loaded."
+ echo " By default the mmseqs binary found in the \"\$PATH\" environment variable will"
+ echo " be used, if there is one."
+ echo " If wGRR is used on Maestro, MMSeqs will be automatically loaded."
echo " -o <string> Base name for the output files."
- echo " by default a random string will be used."
+ echo " By default a random string will be used."
echo " -t <integer> Number of threads to use."
echo " default: 1"
echo " recommended: at least 4"
echo " Note: if wGRR is run on Maestro via sbatch, this number only applies to the"
echo " MMseqs step"
echo " -a <integer> Number of genomes comparisons to be performed in each thread."
- echo " Increasing this will decrease the number of tasks to be performed"
- echo " but each task will take longer and use more RAM."
+ echo " Increasing this will decrease the number of tasks to be performed"
+ echo " but each task will take longer and use more RAM."
echo " default: auto"
echo " -m <integer> Max number of simulteaneous tasks."
echo " Only applicable to Maestro, for the wGRR calculation step."
@@ -73,7 +73,7 @@ fi
if [ $# -lt 1 ] ; then
display_usage
- exit 1
+ exit 0
fi
## Functions
--
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