From 1ede00c929852a79a00697187c5346ff131730e6 Mon Sep 17 00:00:00 2001
From: Sage Wright <sage.wright@theiagen.com>
Date: Thu, 13 Jul 2023 16:17:01 +0000
Subject: [PATCH] convert decimals to dashes too

---
 workflows/utilities/data_import/wf_basespace_fetch.wdl | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/workflows/utilities/data_import/wf_basespace_fetch.wdl b/workflows/utilities/data_import/wf_basespace_fetch.wdl
index 71c0fcfe3..650211eb3 100644
--- a/workflows/utilities/data_import/wf_basespace_fetch.wdl
+++ b/workflows/utilities/data_import/wf_basespace_fetch.wdl
@@ -99,7 +99,7 @@ task fetch_bs {
     # rename FASTQ files to add back in underscores that Illumina/Basespace changed into hyphens
     echo "Concatenating and renaming FASTQ files to add back underscores in basespace_sample_name"
     # setting a new bash variable to use for renaming during concatenation of FASTQs
-    SAMPLENAME_HYPHEN_INSTEAD_OF_UNDERSCORES=$(echo $sample_identifier | sed 's|_|-|g')
+    SAMPLENAME_HYPHEN_INSTEAD_OF_UNDERSCORES=$(echo $sample_identifier | sed 's|_|-|g' | sed 's|\.|-|g')
 
     #Combine non-empty read files into single file without BaseSpace filename cruft
     ##FWD Read