Diff of /build_and_test.sh [000000] .. [5a4941]

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+#!/bin/bash
+
+# Copyright 2017 Google LLC.
+#
+# Redistribution and use in source and binary forms, with or without
+# modification, are permitted provided that the following conditions
+# are met:
+#
+# 1. Redistributions of source code must retain the above copyright notice,
+#    this list of conditions and the following disclaimer.
+#
+# 2. Redistributions in binary form must reproduce the above copyright
+#    notice, this list of conditions and the following disclaimer in the
+#    documentation and/or other materials provided with the distribution.
+#
+# 3. Neither the name of the copyright holder nor the names of its
+#    contributors may be used to endorse or promote products derived from this
+#    software without specific prior written permission.
+#
+# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+# AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+# ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
+# LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
+# CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
+# SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
+# INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
+# CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
+# ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
+# POSSIBILITY OF SUCH DAMAGE.
+
+# NOLINT
+set -eux -o pipefail
+
+source settings.sh
+
+# bazel should have been installed in build-prereq.sh, but the PATH might
+# need to be added in this script.
+if ! bazel; then
+  PATH="$HOME/bin:$PATH"
+fi
+
+# Building examples_from_stream.so C++ library. It cannot be built correctly
+# with the default bazel setup, so we build it manually.
+# examples_from_stream.so is used by call_variants target therefore it has to
+# be built before :binaries.
+TF_CFLAGS=( $(python3 -c 'import tensorflow as tf; print(" ".join(tf.sysconfig.get_compile_flags()))') )
+TF_LFLAGS=( $(python3 -c 'import tensorflow as tf; print(" ".join(tf.sysconfig.get_link_flags()))') )
+
+# shellcheck disable=SC2068
+g++ -std=c++14 -shared \
+        deepvariant/stream_examples_kernel.cc  \
+        deepvariant/stream_examples_ops.cc \
+        -o deepvariant/examples_from_stream.so \
+        -fPIC \
+        -l:libtensorflow_framework.so.2  \
+        -I. \
+        ${TF_CFLAGS[@]} \
+        ${TF_LFLAGS[@]} \
+        -D_GLIBCXX_USE_CXX11_ABI=1 \
+        --std=c++17 \
+        -DEIGEN_MAX_ALIGN_BYTES=64 \
+        -O2
+
+# Run all deepvariant tests.  Take bazel options from args, if any.
+# Note: If running with GPU, tests must be executed serially due to a GPU
+# contention issue.
+if [[ "${DV_GPU_BUILD:-0}" = "1" ]]; then
+  bazel test -c opt --local_test_jobs=1 ${DV_COPT_FLAGS} "$@" \
+    deepvariant/...
+  # GPU tests are commented out for now.
+  # Because they seem to be all filtered out, and as a result causing an error.
+  # See internal#comment5.
+  # TODO: Uncomment this once it's resolved.
+  # bazel test -c opt --local_test_jobs=1 ${DV_COPT_FLAGS} "$@" \
+  #   deepvariant:gpu_tests
+else
+  # Running parallel tests on CPU.
+  bazel test -c opt ${DV_COPT_FLAGS} "$@" deepvariant/...
+fi
+
+# Build the binary.
+./build_release_binaries.sh
+
+echo 'Expect a usage message:'
+(python3 bazel-out/k8-opt/bin/deepvariant/call_variants.zip --help || : ) | grep '/call_variants.py:'
+