Merge branch 'hotfix/1.2.1' into main

cancerit · Nov 1, 2021 · aecf8e8 · aecf8e8
2 parents 1df9a3d + 6c5b516
commit aecf8e8
Show file tree

Hide file tree

Showing 3 changed files with 9 additions and 2 deletions.
diff --git a/CHANGES.md b/CHANGES.md
@@ -1,5 +1,9 @@
 # CHANGES
 
+## 1.2.1
+
+Handle change to how bgzip data is reported by magic decode.
+
 ## 1.2.0
 
 Add `--unique` option to `long-read` mode.  Exits as soon as unique read sequence counts are generated.

diff --git a/pycroquet/readparser.py b/pycroquet/readparser.py
@@ -81,7 +81,10 @@ def parse_fq_header(header: str):
 
 
 def is_gzip(seq_file):
-    return bool("gzip compressed data" in magic.from_file(seq_file))
+    magic_types = magic.from_file(seq_file)
+    if "gzip compressed data" in magic_types or "gzip compatible" in magic_types:
+        return True
+    return False
 
 
 def parse_reads(

diff --git a/setup.py b/setup.py
@@ -38,7 +38,7 @@
     "author": "Keiran M Raine",
     "url": "https://github.com/cancerit/pycroquet",
     "author_email": "[email protected]",
-    "version": "1.2.0",
+    "version": "1.2.1",
     "license": "AGPL-3.0",
     "python_requires": ">= 3.9",
     "install_requires": ["click", "click-option-group", "python-magic", "pysam", "pygas", "PyYAML"],