Makefile_MANAGEMENT

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#                                       SRC: Makefile                                             #
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# VARIABLES SECTION                                                                               #
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REQUIREMNTES_FILE  = requirements.txt
LOCAL_PIP = pip3
CONDA_PIP = '...'

PROJECT_CODEBASE = ./
ARCHIVE_PROJECT_NAME_COLAB = project-genes-fusions-classifier.zip
EXCLUDED_FILES = \
	'*.vscode/*' \
	'*.git/*' \
	.gitignore \
	'*__pycache__/*' \
	./README.md \
	./test_feature.py \
	'*notebooks/*' \
	'*tmp/*' \
	'*data/*' \
	'*tests/*' \
	'*scripts/*' \
	'*resources/*' \
	*.png \
	*.xlsx

# Here - Specify which python interpreter to employ.
SCRIPT_INTERPETER = python3 

# Here - Specify which is the root directory where all results
# from different analyses will be stored, for later investingations 
# about  results, logs and image files.
BASE_DIR_RESULTS = bioinfo_project 

# Here - There are some variable exploited in order
# to run some local tests.
#
# See tasks related to test for more details.
SCRIPT_2_TEST = test_feature.py
TESTS_DIR = tests

# Here - There are two variable used to run the
# classifier tool for genes fusions recognizing:
# - SCRIPT_ANALYSIS, standas for the `main.py` file which is used to
#   write the program;
# - PROGRAM_ANALYSIS, is a symbolic link that can be used to run
#   the program written above without taking care about how it was implemented
#   as weel as without knowing which kind of programming language has been adopted.
#
# See task named `run_analysis` for details how both them have been employed.
SCRIPT_ANALYSIS = main.py
PROGRAM_ANALYSIS = genes_fusions_classifier

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# TASKS SECTION                                                                                   #
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# ---------------------------- ---------------------#
# MANAGEMENT - SECTION                              #
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setup_before_run_task:
	clear

install_requirements_via_pip:
	$(LOCAL_PIP) install -r $(REQUIREMNTES_FILE)
install_requirements_via_conda:	
	$(CONDA_PIP) install -r $(REQUIREMNTES_FILE)

install_libraries_for_graphviz:
	pip install pydot
	pip install pydotplus
	sudo apt-get install graphviz

# Clear directory with subdirectories corresponind to
# different runs with their results.
clear_result_dirs: setup_before_run_task
	rm -fr $(BASE_DIR_RESULTS)

# different runs with their results.
clear_result_dirs_from_tests: setup_before_run_task
	bash ./scripts/script_clear_results_dir_from_tests.sh ./bioinfo_project --not-cancel

build_zip_to_run_on_colab: clear_result_dirs
	rm -f ../$(ARCHIVE_PROJECT_NAME_COLAB)
	zip -r  ../$(ARCHIVE_PROJECT_NAME_COLAB) $(PROJECT_CODEBASE) -x $(EXCLUDED_FILES)