| # Ignore any folder named 'archive' anywhere | |
| **/archive/ | |
| # Ignore all .DS_Store files | |
| .DS_Store | |
| # Ignore SIRIUS project file | |
| lcms/sirius/pipernet.sirius | |
| # Ignore everything inside rnaseq except assemblies folder | |
| rnaseq/* | |
| !rnaseq/assemblies/ | |
| # Inside assemblies, ignore all subfolders' contents except explicitly allowed files | |
| rnaseq/assemblies/*/* | |
| rnaseq/assemblies/*/aurum_data/ | |
| rnaseq/assemblies/*/pnigrum_genome/ | |
| # But do not ignore these specific files/folders in assemblies | |
| !rnaseq/assemblies/*/busco_report.txt | |
| !rnaseq/assemblies/*/transcriptome_expression_isoform.tsv | |
| !rnaseq/assemblies/*/transcriptome.fasta | |
| !rnaseq/assemblies/*/transcriptome.pep | |
| !rnaseq/assemblies/*/annotations/ | |