fix error in run_pytests, trying to get coverage to track examples

Author: oesteban

.coveragerc

@@ -1,11 +1,14 @@
 [run]
 branch = True
 data_file = .coverage
-source = nipype/
+source = .
 omit =
-    external/*
-    fixes/*
+    nipype/external/*
+    nipype/fixes/*
+    tools/*
     */tests/*
+include =
+    tools/run_exaples.py
 
 [report]
 exclude_lines =

docker/files/run_pytests.sh

@@ -31,11 +31,11 @@ if [[ "${PYTHON_VERSION}" -ge "30" ]]; then
     echo 'profile_runtime = true' >> ${HOME}/.nipype/nipype.cfg
     py.test -n ${CIRCLE_NCPUS:-1} -v --junitxml=${WORKDIR}/pytests_py${PYTHON_VERSION}_profiler.xml --cov-report xml:${WORKDIR}/coverage_py${PYTHON_VERSION}_profiler.xml /src/nipype/nipype/interfaces/tests/test_runtime_profiler.py && \
     py.test -n ${CIRCLE_NCPUS:-1} -v --junitxml=${WORKDIR}/pytests_py${PYTHON_VERSION}_multiproc.xml --cov-report xml:${WORKDIR}/coverage_py${PYTHON_VERSION}_multiproc.xml /src/nipype/nipype/pipeline/plugins/tests/test_multiproc*.py
-    exit_code = $(( $exit_code + $?))
+    exit_code=$(( $exit_code + $?))
 fi
 
 find /src/nipype/ -name "crash-*" -exec mv {} ${WORKDIR}/crashfiles/ \;
 
 # Just in case output xml files are misplaced,
 # then circle would not tell the tests failed otherwise
-exit $exit_code
+exit ${exit_code}

pytest.ini

@@ -1,3 +1,3 @@
 [pytest]
-norecursedirs = .git build dist doc nipype/external tools examples tools
+norecursedirs = .git build dist doc nipype/external tools examples tools src
 addopts = --doctest-modules