Solve package issues for linux (on server: daisy)

.gitignore

@@ -4,5 +4,5 @@ mazedyn/.ipynb_checkpoints/**
 mazedyn/__pycache__/**
 mazedyn/animations/**
 mazedyn/data/**
-reebs/**
+mazedyn/figures/**
 

Makefile

@@ -0,0 +1,57 @@
+PYTHON ?= python
+
+.PHONY: test
+test:
+	pytest -v
+
+.PHONY: autoformat
+autoformat:
+	black mazedyn
+	isort mazedyn 
+
+.PHONY: lint
+lint:
+	$(PYTHON) -m flake8 mazedyn
+	$(PYTHON) -m black mazedyn --check
+	# Note that Bandit will look for .bandit file only if it's invoked with -r option.
+	$(PYTHON) -m bandit -c pyproject.toml -r mazedyn --exit-zero
+	$(PYTHON) -m mypy --install-types --non-interactive
+
+.PHONY: clean
+clean:
+	@find . -type f -name '*.py[co]' -delete -o -type d -name __pycache__ -delete
+
+.PHONY: rmtmp
+rmtmp:
+	sudo rm -r /tmp && sudo mkdir /tmp && sudo chmod -R 777 /tmp
+
+.PHONY: rmprocessed
+rmprocessed:
+	rm -rf data/processed/*
+
+.PHONY: rmoutputs
+rmoutputs:
+	rm -rf outputs/*
+
+.PHONY: conda-osx-64.lock
+conda-osx-64.lock:
+	CONDA_SUBDIR=osx-64 conda-lock -f conda.yaml -p osx-64
+	CONDA_SUBDIR=osx-64 conda-lock render -p osx-64
+
+.PHONY: conda-linux-64.lock
+conda-linux-64.lock:
+	conda-lock -f conda.yaml -p linux-64
+	conda-lock render -p linux-64
+
+conda-lock.yml: conda-osx-64.lock conda-linux-64.lock
+
+.PHONY: conda-osx-arm.lock
+conda-osx-arm.lock:
+	CONDA_SUBDIR=osx-arm64 conda-lock -f conda.yaml -p osx-arm64
+	CONDA_SUBDIR=osx-arm64 conda-lock render -p osx-arm64
+
+# Clear the cache and rebuild the lock.
+.PHONY: poetry.lock
+poetry.lock:
+	poetry cache clear --all .
+	poetry lock

README.md

@@ -1 +1,11 @@
 # mazedyn
+
+Install from scratch (on linux)
+
+```
+pip install conda-lock
+make conda-linux-64.lock
+conda create --name mazedyn-b --file conda-linux-64.lock
+conda activate mazedyn-b
+make poetry.lock
+```

conda-linux-64.lock

@@ -0,0 +1,94 @@
+# Generated by conda-lock.
+# platform: linux-64
+# input_hash: ce0729fbe2b2aa0ca9bc9b567c14602f68c3a0f3dbf1293a6b5e836c77d889de
+@EXPLICIT
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