A draft of a simple module to discuss `nf-core` - #1

Draft

Claptar wants to merge 23 commits into

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anndatautils_toh5ad

Commits on Apr 30, 2025

add ANNDATAUTILS_TOH5AD module with configuration and metadata
cellgeni
committed
8efeb53
refactor input type in meta.yml and add initial tests for ANNDATAUTILS_TOH5AD module
cellgeni
committed
de529da
refactor meta.yml by removing unused tool entries and cleaning up input structure
cellgeni
committed
822a9b8

Commits on May 1, 2025

add convert_to_h5ad script for loading and saving AnnData objects with validation
cellgeni
committed
0891679
add Dockerfile for setting up Python environment with necessary dependencies
cellgeni
committed
602d7e5
Add raw data files and update tests for h5ad conversion
cellgeni
committed
0948d95
Enhance ANNDATAUTILS_TOH5AD process to emit versions.yml and h5ad output
cellgeni
committed
460e82e
Refactor meta.yml to standardize keywords and improve input descriptions for clarity
cellgeni
committed
a10b328
Update ANNDATAUTILS_TOH5AD process to use wildcard for name matching and remove container specification
cellgeni
committed
f18c87f

Commits on May 2, 2025

Refactor tests for ANNDATAUTILS_TOH5AD process to improve clarity and add snapshot for output validation
cellgeni
committed
fb2cfd5
Fix quoting in script and stub sections of ANNDATAUTILS_TOH5AD process for improved reliability
cellgeni
committed
24213a8
Add initial configuration for nf-test module with tests directory and work directory settings
cellgeni
committed
fa36589
Fix process name matching for ANNDATAUTILS_TOH5AD to ensure accurate execution
cellgeni
committed
292f451
Add raw data files for PBMC 1K dataset
cellgeni
committed
1ddd9fe
Update nf-test configuration: set testsDir to current directory and add new config file for tests
cellgeni
committed
0634482
Refactor ANNDATAUTILS_TOH5AD process name matching and update test data paths to use params for improved flexibility
cellgeni
committed
80c5f4c

Commits on May 3, 2025

Fix indentation and structure in meta.yml for input and output definitions
Claptar
committed
4e34040
Update modules/sanger/anndatautils/toh5ad/meta.yml

Claptar
and
Copilot
authored
9c207ec
Changed typo in directory name
Claptar
committed
e37e4c4
Added tool description to meta.yml file
Claptar
committed
5ed50e3
fix doi line
Claptar
committed
77ac7ce
Removed TODO comment from tests
Claptar
committed
992558b
Fix output emit syntax in ANNDATAUTILS_TOH5AD process
Claptar
committed
7353d82