Merge pull request #55 from lpantano/devel

update main with umi error fix
lpantano · May 3, 2022 · cc362b6 · cc362b6
2 parents e4ef358 + 5161bdf
commit cc362b6
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Showing 3 changed files with 6 additions and 2 deletions.
diff --git a/HISTORY.md b/HISTORY.md
@@ -1,3 +1,7 @@
+- 1.2.9
+
+  * Fix bug where UMI is mistakenly detected in read names containing "ILLUMINA"
+
 - 1.2.8
 
   * Fix bug when detecting the end of the cluster due to big gaps in biopython function

diff --git a/seqcluster/libs/fastq.py b/seqcluster/libs/fastq.py
@@ -17,7 +17,7 @@ def collapse(in_file):
         line = handle.readline()
         while line:
             if line.startswith("@"):
-                if line.find("UMI") > -1:
+                if line.find("UMI_") > -1:
                     logger.info("Find UMI tags in read names, collapsing by UMI.")
                     return collapse_umi(in_file)
                 seq = handle.readline().strip()

diff --git a/setup.py b/setup.py
@@ -13,7 +13,7 @@ def readme():
 
 
 setup(name='seqcluster',
-      version='1.2.8',
+      version='1.2.9',
       description='Small RNA-seq pipeline',
       long_description=readme(),
       long_description_content_type="text/markdown",