From 0c1ba0470b87907a5a56219fe02b23de26e2725a Mon Sep 17 00:00:00 2001
From: "Thomas A. Christensen II" <25492070+MillironX@users.noreply.github.com>
Date: Wed, 2 Jun 2021 08:29:01 -0500
Subject: [PATCH] Basic cleanup

---
 fastq-to-taxonomy.sh     | 4 ++--
 main.sh                  | 2 +-
 manipulatefeaturetable.R | 4 ++--
 sample-classifier.sh     | 2 +-
 sample-regression.sh     | 2 +-
 5 files changed, 7 insertions(+), 7 deletions(-)

diff --git a/fastq-to-taxonomy.sh b/fastq-to-taxonomy.sh
index 4ecc1f7..97d4ad5 100644
--- a/fastq-to-taxonomy.sh
+++ b/fastq-to-taxonomy.sh
@@ -1,5 +1,5 @@
 #!/bin/bash
-#SBATCH --account=cowusda2016
+#SBATCH --account=ACCOUNT
 #SBATCH --nodes=1
 #SBATCH --ntasks-per-node=4
 #SBATCH --cpus-per-task=4
@@ -14,7 +14,7 @@ R1filename=${1%}
 R2filename="${R1filename/R1/R2}"
 Samplename="${R1filename/_R1_001.fastq.gz/}"
 Samplename="${Samplename/\.\//}"
-	
+
 # Extract rRNA to files
 metaxa2 -1 "$R1filename" -2 "$R2filename" -o "$Samplename" -f q -cpu 4 \
  --summary F --graphical F --fasta F --taxonomy T
diff --git a/main.sh b/main.sh
index 21eb7dc..0954ade 100644
--- a/main.sh
+++ b/main.sh
@@ -1,5 +1,5 @@
 #!/bin/bash
-#SBATCH --account=cowusda2016
+#SBATCH --account=ACCOUNT
 #SBATCH --cpus-per-task=4
 #SBATCH --mem=8G
 #SBATCH --ntasks=32
diff --git a/manipulatefeaturetable.R b/manipulatefeaturetable.R
index 6dc6000..f96a627 100644
--- a/manipulatefeaturetable.R
+++ b/manipulatefeaturetable.R
@@ -1,10 +1,10 @@
 # Read the inital feature table in
 feature_table <- read.table("metaxa-feature-table.tsv",
-							              header=TRUE,
+                            header=TRUE,
                             sep="\t",
                             quote="",
                             strip.white=TRUE,
-							              check.names=FALSE)
+                            check.names=FALSE)
 
 # Get the dimensions of the table
 numSamples <- ncol(feature_table) - 1
diff --git a/sample-classifier.sh b/sample-classifier.sh
index 1f3e8f7..ebe32df 100644
--- a/sample-classifier.sh
+++ b/sample-classifier.sh
@@ -1,5 +1,5 @@
 #!/bin/bash
-#SBATCH --account=cowusda2016
+#SBATCH --account=ACCOUNT
 #SBATCH --ntasks=1
 #SBATCH --cpus-per-task=4
 #SBATCH --mem=8G
diff --git a/sample-regression.sh b/sample-regression.sh
index e7dd013..b4a113b 100644
--- a/sample-regression.sh
+++ b/sample-regression.sh
@@ -1,5 +1,5 @@
 #!/bin/bash
-#SBATCH --account=cowusda2016
+#SBATCH --account=ACCOUNT
 #SBATCH --ntasks=1
 #SBATCH --cpus-per-task=4
 #SBATCH --mem=8G