svaba/.gitignore at master · walaj/svaba · GitHub

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build
tmp*
back.*
new.*
*.pdf
.*
[#]*[#]
.\#*
*~
_build
_static
_templates
autom4te.cache
config.h*
install-sh
stamp-h1
Makefile
aclocal*
config.log
config.status
*.o
bin
aclocal.m4
html
latex
compile
*.a
*.rds

# --- sim/ simulator: generated outputs (regeneratable from seed+code; never commit) ---
# Keeps the sim CODE (*.py, *.sh, *.md, *.yml) but ignores donor genomes, reads,
# alignments, and truth files wherever an OUTDIR lands under sim/ (or repo root).
sim_out/
sim/sim_out/
sim/smoke/
sim/**/fastq_*/
sim/**/*.fa
sim/**/*.fa.fai
sim/**/*.fasta
sim/**/*.fai
sim/**/*.fq
sim/**/*.fq.gz
sim/**/*.fastq
sim/**/*.fastq.gz
sim/**/*.bam
sim/**/*.bam.bai
sim/**/*.bai
sim/**/*.sam
sim/**/*.cram
sim/**/truth.vcf
sim/**/truth.bedpe
sim/**/truth.sv_table.tsv
sim/**/ref_subset.fa
sim/**/bwa_*.log
*.mixtmp.*
sim/__pycache__/