mutts 1.0.2__py3-none-any.whl → 1.0.4__py3-none-any.whl

mutts/cli.py

@@ -114,8 +114,7 @@ def cli(
         if mapper_basename in jgi_v15_mappers:
             # Path to static JGI v15 Excel template
             static_excel_path = os.path.join(
-                os.path.dirname(__file__), '..', '..',
-                'input-files', 'static-excel-tabs', 'JGI.Metagenome.NA.v15.xlsx'
+                os.path.dirname(__file__), 'static-excel-tabs', 'JGI.Metagenome.NA.v15.xlsx'
             )
 
             # Copy INSTRUCTIONS and PLATE LOCATIONS sheets from JGI v15 template

mutts/retriever.py

@@ -120,7 +120,7 @@ class MetadataRetriever:
             all_sample_data_df = pd.concat(sample_data_dfs, ignore_index=True)
             # Merge the combined sample data with df on samp_name
             if not df.empty and not all_sample_data_df.empty:
-                df = pd.merge(df, all_sample_data_df, on="samp_name", how="outer")
+                df = pd.merge(df, all_sample_data_df, on="samp_name", how="left")
 
         # Auto-fill depth with 0 for JGI facilities if no value is provided
         if self.user_facility in ["jgi_mg", "jgi_mt", "jgi_mg_lr"]:

{mutts-1.0.2.dist-info → mutts-1.0.4.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: mutts
-Version: 1.0.2
+Version: 1.0.4
 Summary: Metadata for User facility Template Transformations
 License: MIT
 Keywords: NMDC,US DOE user facilities,metadata translation
@@ -31,6 +31,7 @@ Description-Content-Type: text/markdown
   - [MUTTs User Documentation](#mutts-user-documentation)
     - [Prerequisites](#prerequisites)
     - [Installation](#installation)
+    - [Updating to the Latest Version](#updating-to-the-latest-version)
     - [Usage](#usage)
       - [Example 1: Generate a JGI Metagenome spreadsheet](#example-1-generate-a-jgi-metagenome-spreadsheet)
       - [Example 2: Generate a JGI Metagenome v15 spreadsheet](#example-2-generate-a-jgi-metagenome-v15-spreadsheet)
@@ -99,6 +100,24 @@ Download the mapper files you need from the [input-files directory](https://gith
 - For JGI Metagenome: `jgi_mg_header.json` or `jgi_mg_header_v15.json`
 - For JGI Metatranscriptome: `jgi_mt_header.json` or `jgi_mt_header_v15.json`
 
+### Updating to the Latest Version
+
+To ensure you have the latest features and bug fixes, you can upgrade the MUTTs package from PyPI:
+
+```bash
+pip install --upgrade mutts
+```
+
+To check your currently installed version:
+```bash
+pip show mutts
+```
+
+You can also install a specific version if needed:
+```bash
+pip install mutts==<version>
+```
+
 ### Usage
 
 Run the `mutts` command with the required options:

mutts-1.0.4.dist-info/RECORD

@@ -0,0 +1,9 @@
+mutts/__init__.py,sha256=iTcKOq5Id9qudNWyTGPJyJGuS19yG-FhPlmSfuJM7jU,217
+mutts/cli.py,sha256=YzRnMLEtbFc2yuAYqWoljvk0Z9IEHDw3XefjTZE8Rbg,4912
+mutts/retriever.py,sha256=EndVTzjFk5uDj9g8vCgYPqzD0Qgig99Tc0Gs49jz4UM,8332
+mutts/spreadsheet.py,sha256=hSEEkTcTmkEFsktGG1_s4gAPuDys9Dnzbdk9cfJKwcY,5053
+mutts/static-excel-tabs/JGI.Metagenome.NA.v15.xlsx,sha256=tYlYX5QZVjiiCrsCsxfL73O0BdvlqttBjUyqXsv8s7s,22099
+mutts-1.0.4.dist-info/METADATA,sha256=SCAJLFcNfMGOjxoWVLc7JnP6_BXflo6TWCRGZLKyrWo,9341
+mutts-1.0.4.dist-info/WHEEL,sha256=zp0Cn7JsFoX2ATtOhtaFYIiE2rmFAD4OcMhtUki8W3U,88
+mutts-1.0.4.dist-info/entry_points.txt,sha256=rDp08H4MnNWGYHFE6ZAqOocRyTp68IPJsjXTcQppi8s,39
+mutts-1.0.4.dist-info/RECORD,,

mutts-1.0.2.dist-info/RECORD

@@ -1,8 +0,0 @@
-mutts/__init__.py,sha256=iTcKOq5Id9qudNWyTGPJyJGuS19yG-FhPlmSfuJM7jU,217
-mutts/cli.py,sha256=WB7uaOHfbz7rU3psO9OVP8ScAj7Nv3OolSykFCYLyvk,4955
-mutts/retriever.py,sha256=B9cShEaeOY4BN1nWaML_UzMTR971X4rn1XfqyvZhAno,8333
-mutts/spreadsheet.py,sha256=hSEEkTcTmkEFsktGG1_s4gAPuDys9Dnzbdk9cfJKwcY,5053
-mutts-1.0.2.dist-info/METADATA,sha256=Pg_oNL4XqxCAsHfR_zi98acFZD8nJ7RLCDxGn6hjGuU,8928
-mutts-1.0.2.dist-info/WHEEL,sha256=zp0Cn7JsFoX2ATtOhtaFYIiE2rmFAD4OcMhtUki8W3U,88
-mutts-1.0.2.dist-info/entry_points.txt,sha256=rDp08H4MnNWGYHFE6ZAqOocRyTp68IPJsjXTcQppi8s,39
-mutts-1.0.2.dist-info/RECORD,,