build_and_test.sh

#!/bin/bash

# Copyright 2017 Google LLC.
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# 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
  echo -e "\n\n\n\n\n"
  echo "ERROR! Path to the directory with bazel binary file is not the \$PATH variable."
  echo -e "\n\n\n\n\n"
fi

# 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[@]}" "$@" \
    deepvariant/...
  # GPU tests are commented out for now.
  # Because they seem to be all filtered out, and as a result causing an error.
  # See internal#comment5.
  # redacted
  # bazel test -c opt --local_test_jobs=1 "${DV_COPT_FLAGS[@]}" "$@" \
  #   deepvariant:gpu_tests
else
  # Running parallel tests on CPU.
  bazel test -c opt "${DV_COPT_FLAGS[@]}" "$@" deepvariant/...
fi

# Build the binary.
bash build_release_binaries.sh

echo 'Expect a usage message:'
(python3 bazel-bin/deepvariant/call_variants.zip --help || : ) | grep '/call_variants.py:'