mirror of
https://github.com/Unstructured-IO/unstructured.git
synced 2025-10-17 11:09:41 +00:00
7fd7d7afae
Unstructured-ingest biomed connector: Adds max retries, max request time with backoff and decay. --------- Co-authored-by: Crag Wolfe <crag@unstructuredai.io>
57 lines
2.1 KiB
Bash
Executable File
57 lines
2.1 KiB
Bash
Executable File
#!/usr/bin/env bash
|
|
# shellcheck disable=SC2317
|
|
|
|
set -e
|
|
|
|
SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
|
|
cd "$SCRIPT_DIR"/.. || exit 1
|
|
|
|
if [[ "$(find test_unstructured_ingest/expected-structured-output/biomed-ingest-output-api/ -type f -size +10k | wc -l)" != 2 ]]; then
|
|
echo "The test fixtures in test_unstructured_ingest/expected-structured-output/biomed-ingest-output-api/ look suspicious. At least one of the files is too small."
|
|
echo "Did you overwrite test fixtures with bad outputs?"
|
|
exit 1
|
|
fi
|
|
|
|
PYTHONPATH=. ./unstructured/ingest/main.py \
|
|
--metadata-exclude filename,file_directory,metadata.data_source.date_processed \
|
|
--biomed-api-from "2019-01-02" \
|
|
--biomed-api-until "2019-01-02+00:03:10" \
|
|
--biomed-max-retries 5 \
|
|
--biomed-max-request-time 30 \
|
|
--biomed-decay .3 \
|
|
--structured-output-dir biomed-ingest-output-api \
|
|
--num-processes 2 \
|
|
--partition-strategy hi_res \
|
|
--reprocess \
|
|
--verbose \
|
|
--re-download \
|
|
--download-dir files-ingest-download/biomed-api \
|
|
--preserve-downloads
|
|
|
|
OVERWRITE_FIXTURES=${OVERWRITE_FIXTURES:-false}
|
|
|
|
set +x
|
|
|
|
# to update ingest test fixtures, run scripts/ingest-test-fixtures-update.sh on x86_64
|
|
if [[ "$OVERWRITE_FIXTURES" != "false" ]]; then
|
|
|
|
OWNER_GROUP=$(stat -c "%u:%g" test_unstructured_ingest/expected-structured-output/biomed-ingest-output-api)
|
|
rsync -rv --chown="$OWNER_GROUP" biomed-ingest-output-api/ test_unstructured_ingest/expected-structured-output/biomed-ingest-output-api
|
|
|
|
elif ! diff -ru biomed-ingest-output-api test_unstructured_ingest/expected-structured-output/biomed-ingest-output-api ; then
|
|
echo
|
|
echo "There are differences from the previously checked-in structured outputs."
|
|
echo
|
|
echo "If these differences are acceptable, overwrite by the fixtures by setting the env var:"
|
|
echo
|
|
echo " export OVERWRITE_FIXTURES=true"
|
|
echo
|
|
echo "and then rerun this script."
|
|
echo
|
|
echo "NOTE: You'll likely just want to run scripts/ingest-test-fixtures-update.sh on x86_64 hardware"
|
|
echo "to update fixtures for CI."
|
|
echo
|
|
exit 1
|
|
|
|
fi
|