mutts 1.0.3__tar.gz → 1.0.4__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {mutts-1.0.3 → mutts-1.0.4}/PKG-INFO +20 -1
- {mutts-1.0.3 → mutts-1.0.4}/README.md +19 -0
- {mutts-1.0.3 → mutts-1.0.4}/pyproject.toml +1 -1
- {mutts-1.0.3 → mutts-1.0.4}/src/mutts/retriever.py +1 -1
- {mutts-1.0.3 → mutts-1.0.4}/src/mutts/__init__.py +0 -0
- {mutts-1.0.3 → mutts-1.0.4}/src/mutts/cli.py +0 -0
- {mutts-1.0.3 → mutts-1.0.4}/src/mutts/spreadsheet.py +0 -0
- {mutts-1.0.3 → mutts-1.0.4}/src/mutts/static-excel-tabs/JGI.Metagenome.NA.v15.xlsx +0 -0
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Metadata-Version: 2.4
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Name: mutts
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Version: 1.0.
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Version: 1.0.4
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Summary: Metadata for User facility Template Transformations
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License: MIT
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Keywords: NMDC,US DOE user facilities,metadata translation
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- [MUTTs User Documentation](#mutts-user-documentation)
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- [Prerequisites](#prerequisites)
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- [Installation](#installation)
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- [Updating to the Latest Version](#updating-to-the-latest-version)
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- [Usage](#usage)
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- [Example 1: Generate a JGI Metagenome spreadsheet](#example-1-generate-a-jgi-metagenome-spreadsheet)
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- [Example 2: Generate a JGI Metagenome v15 spreadsheet](#example-2-generate-a-jgi-metagenome-v15-spreadsheet)
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- For JGI Metagenome: `jgi_mg_header.json` or `jgi_mg_header_v15.json`
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- For JGI Metatranscriptome: `jgi_mt_header.json` or `jgi_mt_header_v15.json`
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### Updating to the Latest Version
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To ensure you have the latest features and bug fixes, you can upgrade the MUTTs package from PyPI:
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```bash
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pip install --upgrade mutts
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```
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To check your currently installed version:
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```bash
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pip show mutts
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```
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You can also install a specific version if needed:
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```bash
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pip install mutts==<version>
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```
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### Usage
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Run the `mutts` command with the required options:
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- [MUTTs User Documentation](#mutts-user-documentation)
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- [Prerequisites](#prerequisites)
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- [Installation](#installation)
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- [Updating to the Latest Version](#updating-to-the-latest-version)
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- [Usage](#usage)
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- [Example 1: Generate a JGI Metagenome spreadsheet](#example-1-generate-a-jgi-metagenome-spreadsheet)
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- [Example 2: Generate a JGI Metagenome v15 spreadsheet](#example-2-generate-a-jgi-metagenome-v15-spreadsheet)
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- For JGI Metagenome: `jgi_mg_header.json` or `jgi_mg_header_v15.json`
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- For JGI Metatranscriptome: `jgi_mt_header.json` or `jgi_mt_header_v15.json`
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### Updating to the Latest Version
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To ensure you have the latest features and bug fixes, you can upgrade the MUTTs package from PyPI:
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```bash
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pip install --upgrade mutts
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```
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To check your currently installed version:
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```bash
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pip show mutts
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```
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You can also install a specific version if needed:
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```bash
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pip install mutts==<version>
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```
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### Usage
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Run the `mutts` command with the required options:
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all_sample_data_df = pd.concat(sample_data_dfs, ignore_index=True)
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# Merge the combined sample data with df on samp_name
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if not df.empty and not all_sample_data_df.empty:
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df = pd.merge(df, all_sample_data_df, on="samp_name", how="
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df = pd.merge(df, all_sample_data_df, on="samp_name", how="left")
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# Auto-fill depth with 0 for JGI facilities if no value is provided
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if self.user_facility in ["jgi_mg", "jgi_mt", "jgi_mg_lr"]:
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