Makefile: build automation software

If you haven’t used Make yet, you should do it now! Make is a software that can help your research worfklow by automating certain procedures. For example, you can use Make to re-run all your necessary codes whenever there is a change in the raw data in your folder.

Below I provide a very simple example of Makefile which is used to run Make. The code below checks all the folders that have git installed and can do git pull and git push for all the folders instead of manually going into the subfolders and run the command separately.

ENJOY!

.PHONY: pull-all push-all

SUBDIRS := $(shell find . -mindepth 1 -maxdepth 1 -type d)

pull-all:
    @for dir in $(SUBDIRS); do \
        if [ -d "$$dir/.git" ]; then \
            echo "Pulling in $$dir..."; \
            (cd $$dir && git pull); \
        else \
            echo "Skipping $$dir (not a git repo)"; \
        fi \
    done

push-all:
    @for dir in $(SUBDIRS); do \
        if [ -d "$$dir/.git" ]; then \
            echo "Pushing in $$dir..."; \
            (cd $$dir && git push); \
        else \
            echo "Skipping $$dir (not a git repo)"; \
        fi \
    done