Author: Steffen Moeller
Last-Update: 2020-03-26 04:21:08 +0100
Description: Use Python3 in test
Bug: https://github.com/PacificBiosciences/kineticsTools/pull/76

--- kineticstools.orig/test/test_gather_bigwig.py
+++ kineticstools/test/test_gather_bigwig.py
@@ -72,7 +72,7 @@
     def test_gather_bigwig_cli(self):
         tmp_dir = tempfile.mkdtemp()
         ofn = op.join(tmp_dir, "gathered.bw")
-        args = ["python", "-m", "kineticsTools.tasks.gather_bigwig",
+        args = ["python3", "-m", "kineticsTools.tasks.gather_bigwig",
                 ofn] + self._data_files
         log.info("Output will be in %s", tmp_dir)
         with open(op.join(tmp_dir, "stdout"), "w") as stdout:
--- kineticstools.orig/Makefile
+++ kineticstools/Makefile
@@ -6,17 +6,17 @@
 all: build install
 
 build:
-	python setup.py build --executable="/usr/bin/env python"
+	python3 setup.py build --executable="/usr/bin/env python"
 
 bdist:
-	python setup.py build --executable="/usr/bin/env python"
-	python setup.py bdist --formats=egg
+	python3 setup.py build --executable="/usr/bin/env python"
+	python3 setup.py bdist --formats=egg
 
 install:
-	python setup.py install
+	python3 setup.py install
 
 develop:
-	python setup.py develop
+	python3 setup.py develop
 
 clean:
 	rm -rf build/;\
@@ -29,17 +29,17 @@
 tests: cram-tests py-tests extra-tests
 
 cram-tests:
-	cram --verbose --xunit-file=cramtests.xml `ls test/cram/*.t | grep -v detection_bam`
+	cram3 --verbose --xunit-file=cramtests.xml `ls test/cram/*.t | grep -v detection_bam`
 
 long-tests:
-	cram test/cram/long_running/*.t
+	cram3 test/cram/long_running/*.t
 
 py-tests:
 	# pytest --cov=kineticsTools  # does not quite work since we run in test/ dir.
-	cd test/; pytest -s -v -p no:warnings -n auto --dist=loadscope --durations=20 --junitxml=../nosetests.xml --cov-report=xml:../coverage.xml test_*.py
+	cd test/; pytest-3 -s -v -p no:warnings --durations=20 --junitxml=../nosetests.xml test_*.py
 
 extra-tests:
-	#cram --verbose --xunit-file=cramtests-extra.xml test/cram/extra/*.t
+	#cram3 --verbose --xunit-file=cramtests-extra.xml test/cram/extra/*.t
 	# TODO: Fix chemistry and re-enable this test.
 
 pylint: