Mercurial > repos > shellac > sam_consensus_v3
diff env/lib/python3.9/site-packages/galaxy/tool_util/verify/asserts/archive.py @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/env/lib/python3.9/site-packages/galaxy/tool_util/verify/asserts/archive.py Mon Mar 22 18:12:50 2021 +0000 @@ -0,0 +1,37 @@ +import io +import re +import tarfile +import zipfile + + +def _extract_from_tar(tar_temp, path): + for fn in tar_temp.getnames(): + if re.match(path, fn): + # Will only match on first hit, probably fine for now + return tar_temp.extractfile(fn) + + +def _extract_from_zip(zip_temp, path): + for fn in zip_temp.namelist(): + if re.match(path, fn): + # Will only match on first hit, probably fine for now + return zip_temp.open(fn) + + +def assert_has_archive_member(output_bytes, path, verify_assertions_function, children): + """ Recursively checks the specified children assertions against the text of + the first element matching the specified path found within the archive. + Currently supported formats: .zip, .tar, .tar.gz.""" + + output_temp = io.BytesIO(output_bytes) + try: # tar / tar.gz + temp = tarfile.open(fileobj=output_temp, mode='r') + contents = _extract_from_tar(temp, path) + except tarfile.TarError: # zip + temp = zipfile.ZipFile(output_temp, mode='r') + contents = _extract_from_zip(temp, path) + finally: + verify_assertions_function(contents.read(), children) + contents.close() + temp.close() + output_temp.close()