Closed zkamvar closed 6 years ago
This removes all derived files when make clean is run. Previously, there were still data files and manuscript files available. This further enforces reproducibility.
make clean
$ make clean rm -f results/data-comparison.md rm -f data/*.{csv,rda,rdb,rds} rm -f results/table-1.md results/MCG-virulence.md results/locus-stats.md results/MLG-distribution.md results/mlg-mcg.md results/RDA-analysis.md results/pop-diff.md results/tree.md results/wmn-differentiation.md results/by-year.md results/compare-aldrich-wolfe.md rm -f doc/manuscript/manuscript.pdf doc/manuscript/manuscript_shell.tex rm -f README rm -f -r results/figures/publication results/tables/ rm -f -r results/ rm -f doc/RMD/*html rm -f doc/manuscript/*{tex,pdf} rm -f cache/* $ tree -a --charset ascii -I .git . |-- .Rbuildignore |-- .Rprofile |-- .circleci | `-- config.yml |-- .dockerignore |-- .gitignore |-- DESCRIPTION |-- Dockerfile |-- LICENSE |-- Makefile |-- README.Rmd |-- README.md |-- data | `-- raw | |-- 2017-02-16_binned-genotypes-genalex_SA.csv | `-- 2017-02-16_copy-of-binned-genotypes_SE.xlsx |-- doc | |-- RMD | | |-- MCG-virulence.Rmd | | |-- MLG-distribution.Rmd | | |-- RDA-analysis.Rmd | | |-- by-year.Rmd | | |-- compare-aldrich-wolfe.Rmd | | |-- data-comparison.Rmd | | |-- locus-stats.Rmd | | |-- mlg-mcg.Rmd | | |-- pop-diff.Rmd | | |-- table-1.Rmd | | |-- tree.Rmd | | `-- wmn-differentiation.Rmd | `-- manuscript | |-- README.md | |-- abstract.md | |-- apa.csl | |-- images | | |-- mcg-trimmed.png | | `-- mcg.jpg | |-- manuscript.Rmd | |-- ssc_bibliography.bib | `-- wlpeerj.cls |-- move-supplementary.sh |-- tests.sh `-- znk_analysis.Rproj 7 directories, 36 files
This removes all derived files when
make clean
is run. Previously, there were still data files and manuscript files available. This further enforces reproducibility.