convert Path to string for prefix

bactopia · Sep 7, 2023 · 3f0c46c · 3f0c46c
1 parent 2dacb6a
commit 3f0c46c
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Showing 3 changed files with 6 additions and 2 deletions.
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -7,6 +7,10 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## Unreleased
 
+## 1.0.8
+
+- Fixed `bactopia-prepare` usage of `--prefix` not working
+
 ## 1.0.7
 
 - Fixed `bactopia-search` not including header name in accessions.txt

diff --git a/bactopia/cli/prepare.py b/bactopia/cli/prepare.py
@@ -124,7 +124,7 @@ def search_path(path, pattern, recursive=False):
 def get_path(fastq, abspath, prefix):
     fastq_path = str(fastq.absolute())
     if prefix:
-        return fastq_path.replace(abspath, prefix).replace("///", "//")
+        return fastq_path.replace(str(abspath), prefix).replace("///", "//")
     return fastq_path
 
 

diff --git a/pyproject.toml b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "bactopia"
-version = "1.0.7"
+version = "1.0.8"
 description = "A Python package for working with Bactopia"
 authors = [
     "Robert A. Petit III <[email protected]>",