From 635577180c2105de4d78a877ac4adc47376d02b1 Mon Sep 17 00:00:00 2001
From: deliaBlue <iris.mepa13@gmail.com>
Date: Mon, 22 Jan 2024 15:40:43 +0100
Subject: [PATCH] refactor: use NULL as default
---
ascii_alignment_pileup.R | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/ascii_alignment_pileup.R b/ascii_alignment_pileup.R
index 6d019b4..ff7bb87 100755
--- a/ascii_alignment_pileup.R
+++ b/ascii_alignment_pileup.R
@@ -128,7 +128,7 @@ option_list <- list(
"--prefix",
action="store",
type="character",
- default="",
+ default=NULL,
help="Prefix to be used in the output file name(s). If not provided
the input BAM file(s) name will be used instead,",
metavar="string"
@@ -197,7 +197,7 @@ if (! is.null(fl.ref)) {ref <- FaFile(fl.ref)}
if (! is.null(fl.anno)) {anno <- import(con=fl.anno)}
# Get file prefix from BAM files or from CLI argument
-fl.prefix <- if (prefix.out != "") prefix.out else paste(basename(file_path_sans_ext(fl.bam)), collapse=".")
+fl.prefix <- if (! is.null(prefix.out)) prefix.out else paste(basename(file_path_sans_ext(fl.bam)), collapse=".")
#---> <---#
# Print status message
--
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