Updated input files and parameters for both rules. bio/gffread/test/annotation.gff3 - Introduced a new GFF3 file defining genomic features for two genes with transcripts, exons, and CDS. bio/gffread/wrapper.py - Expanded annotation format checks to include .gff and .gff3.- Updated output ...
1-1: Review empty input array and checksums The input array and input_checksums object are both empty. While this might be intentional, it's worth verifying: If the rule truly doesn't require any input files. If input file integrity checks are being skipped unintentionally. To check if this...
ignore snakemake in testdata CHANGELOG.md Update CHANGELOG.md CODE_OF_CONDUCT.md code of conduct and badge added DEVELOPER.md fix: test execution from IDEA fixed LICENSE.txt license added README.md fix: readme logo fixed _config.yml
QC The PR contains a test case for the changes or the changes are already covered by an existing test case. The documentation (docs/) is updated to reflect the changes or this is not necessary ...
Required input files for the pipeline To run the pipeline, we need Multiplexed R1/R2 read pairs (Undetermined_S0_L001_R1_001.fastq.gz, Undetermined_S0_L001_R2_001.fastq.gz), and QIIME2 compatible mapping file Tab delimited The first two columns should be SampleID (or #SampleID) and ...
Input and output files formats, dependencies between steps, and main software used are shown. Optional steps are highlighted in red. Figure 2: Overview of the GenErode pipeline data analysis tracks and final reports. Input file formats and main software used are shown. Licence information GenEro...
Additionally, you can add@coderabbitai ignoreanywhere in the PR description to prevent this PR from being reviewed. CodeRabbit Configuration File (.coderabbit.yaml) You can programmatically configure CodeRabbit by adding a.coderabbit.yamlfile to the root of your repository. ...
test.py was updated to call any added or updated example rules in a Snakefile input: and output: file paths in the rules can be chosen arbitrarily wherever possible, command line arguments are inferred and set automatically (e.g. based on file extensions in input: or output:) temporary fi...
Missing output files: results/jobgraph.png, results/rulegraph.png; Input files updated by another job: results/data/4/4_interpolated_wheat_map, results/data/6/6_interpolated_wheat_map, results/data/11/11_interpolated_wheat_map, results/data/18/18_interpolated_wheat_map, results/data/14/14_...
- Updated input parameter in the `bash` rule for clarity without affecting functionality. - **New Features** - Improved parameter handling in the Bash script generation process for enhanced functionality. <!-- end of auto-generated comment: release notes by coderabbit.ai --> --- Co-authored...