cleanup

Makefile

@@ -1,4 +1,4 @@
-.PHONY: all lint test test-cov install create-env install-req dev prep-dev-container clean distclean
+.PHONY: all lint test test-cov install create-env install-req dev clean distclean
 
 PYTHON ?= python
 
@@ -15,7 +15,7 @@ test-cov: all
 
 # install c-lasso & coral_pytorch
 install-pip:
-	pip install \
+	$(PYTHON) -m pip install \
 	https://files.pythonhosted.org/packages/8c/12/b2f7511fbc3563e318754f33c30b2ee5cf095d97896094235202521febc1/c_lasso-1.0.11-py3-none-any.whl \
 	https://files.pythonhosted.org/packages/37/16/abebcfe69a8d7b526770ee23832fd6fed7a12afd469611c459f6dd500f81/coral_pytorch-1.4.0-py2.py3-none-any.whl
 
@@ -27,19 +27,13 @@ create-env: install-req
 
 install-req:
 	@command -v mamba >/dev/null 2>&1 || { echo "Installing mamba..."; conda install -y mamba -n base -c conda-forge; }
-	pip install PyYAML jinja2
+	$(PYTHON) -m pip install PyYAML jinja2
 
 dev: install-pip
 	$(CONDA_PREFIX)/bin/pip install pre-commit parameterized ruff black pytest pytest-cov flake8 versioneer mypy types-PyYAML ipykernel
 	$(CONDA_PREFIX)/bin/pip install -e .
 	pre-commit install
 
-prep-dev-container: all
-	conda install mamba -qy -n base -c conda-forge
-	mamba install -p /opt/conda/envs/qiime2-$(QIIME_VERSION) -qy -c conda-forge -c bioconda -c defaults --file requirements.txt flake8 coverage wget pytest-xdist autopep8
-	/opt/conda/envs/qiime2-$(QIIME_VERSION)/bin/pip install -q https://github.com/qiime2/q2lint/archive/master.zip
-	/opt/conda/envs/qiime2-$(QIIME_VERSION)/bin/pip install -e .
-
 clean: distclean
 
 distclean: ;