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fix: report failed transfers instead of ending in success

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Upload and download failures were printed and then forgotten: a batch
that lost files still exited 0, and a file the client could not write
was listed as if it had arrived. Nothing downstream could tell.

- Return a verdict from every transfer worker and raise once at the
  end, so a run that lost a file exits 2.
- Raise the error when a downloaded file cannot be written locally,
  instead of printing it and reporting the path as a success.
- Write a download beside its destination and move it into place once
  complete, and refuse a destination that cannot be written, so a
  failed transfer no longer leaves a truncated file behind.
- Carry on through the remaining sub-folders when a recursive download
  loses a file or cannot create a folder locally.
- Name the file and give the reason in every failure message.
- Count a failure the API layer did not raise, such as a file that
  disappeared between the directory walk and its turn to be sent.
- Extract the directory walk from `Uploader.upload` to keep it within
  the complexity limit.
- Cover all of the above in `tests/test_transfer.py`.
This commit is contained in:
orrisroot
2026-09-04 16:31:24 +09:00
parent e5c28835b8
commit 914dd729aa
4 changed files with 464 additions and 81 deletions
Download Patch File Download Diff File Expand all files Collapse all files
mdrsclient/transfer.py
+120 -77
View File
@@ -6,7 +6,7 @@ from unicodedata import normalize
from pydantic.dataclasses import dataclass
from mdrsclient.api import FilesApi, FoldersApi
from mdrsclient.exceptions import IllegalArgumentException, MDRSException, UnexpectedException
from mdrsclient.exceptions import IllegalArgumentException, UnexpectedException
from mdrsclient.models import File, Folder, Laboratory
from mdrsclient.models.file import find_file
from mdrsclient.settings import CONCURRENT
@@ -27,7 +27,6 @@ class DownloadFileInfo:
@dataclass
class DownloadContext:
hasError: bool
isSkipIfExists: bool
files: list[DownloadFileInfo]
@@ -47,54 +46,67 @@ class Uploader:
laboratory = self.client.find_laboratory(laboratory_name)
folder = self.client.find_folder(laboratory, r_path)
files = self.client.find_files(folder.id)
infos: list[UploadFileInfo] = []
if os.path.isdir(l_path):
if not is_recursive:
raise IllegalArgumentException(f"Cannot upload `{local_path}`: Is a directory.")
folder_api = FoldersApi(self.client.connection)
folder_map: dict[str, Folder] = {}
folder_map[r_path] = folder
files_map: dict[str, list[File]] = {}
files_map[r_path] = files
l_basename = os.path.basename(l_path)
for dirpath, _, filenames in os.walk(l_path, followlinks=True):
sub = l_basename if dirpath == l_path else os.path.join(l_basename, os.path.relpath(dirpath, l_path))
d_dirname = os.path.join(r_path, sub)
d_basename = os.path.basename(d_dirname)
# prepare destination parent path
d_parent_dirname = os.path.dirname(d_dirname)
if folder_map.get(d_parent_dirname) is None:
parent_folder = self.client.find_folder(laboratory, d_parent_dirname)
folder_map[d_parent_dirname] = parent_folder
parent_files = self.client.find_files(parent_folder.id)
files_map[d_parent_dirname] = parent_files
# prepare destination path
if folder_map.get(d_dirname) is None:
d_folder = folder_map[d_parent_dirname].find_sub_folder(d_basename)
if d_folder is None:
d_folder_id = folder_api.create(normalize("NFC", d_basename), folder_map[d_parent_dirname].id)
else:
d_folder_id = d_folder.id
print(d_dirname)
folder_map[d_dirname] = folder_api.retrieve(d_folder_id)
files_map[d_dirname] = self.client.find_files(d_folder_id)
if d_folder is None:
folder_map[d_parent_dirname].sub_folders.append(folder_map[d_dirname])
# register upload file list
for filename in filenames:
infos.append(
UploadFileInfo(folder_map[d_dirname], files_map[d_dirname], os.path.join(dirpath, filename))
)
infos = self.__collect_directory_uploads(laboratory, r_path, l_path, folder, files)
else:
infos.append(UploadFileInfo(folder, files, l_path))
self.__multiple_upload(infos, is_skip_if_exists)
infos = [UploadFileInfo(folder, files, l_path)]
if not self.__multiple_upload(infos, is_skip_if_exists):
# One file failing is worth reporting on its own line, and worth the caller
# hearing about: a batch that lost files is not a batch that succeeded.
raise UnexpectedException("Some files failed to upload.")
def __multiple_upload(self, infos: list[UploadFileInfo], is_skip_if_exists: bool) -> None:
def __collect_directory_uploads(
self, laboratory: Laboratory, r_path: str, l_path: str, folder: Folder, files: list[File]
) -> list[UploadFileInfo]:
"""Mirror a local directory tree on the remote, and list the files to send into it."""
infos: list[UploadFileInfo] = []
folder_api = FoldersApi(self.client.connection)
folder_map: dict[str, Folder] = {}
folder_map[r_path] = folder
files_map: dict[str, list[File]] = {}
files_map[r_path] = files
l_basename = os.path.basename(l_path)
for dirpath, _, filenames in os.walk(l_path, followlinks=True):
sub = l_basename if dirpath == l_path else os.path.join(l_basename, os.path.relpath(dirpath, l_path))
d_dirname = os.path.join(r_path, sub)
d_basename = os.path.basename(d_dirname)
# prepare destination parent path
d_parent_dirname = os.path.dirname(d_dirname)
if folder_map.get(d_parent_dirname) is None:
parent_folder = self.client.find_folder(laboratory, d_parent_dirname)
folder_map[d_parent_dirname] = parent_folder
parent_files = self.client.find_files(parent_folder.id)
files_map[d_parent_dirname] = parent_files
# prepare destination path
if folder_map.get(d_dirname) is None:
d_folder = folder_map[d_parent_dirname].find_sub_folder(d_basename)
if d_folder is None:
d_folder_id = folder_api.create(normalize("NFC", d_basename), folder_map[d_parent_dirname].id)
else:
d_folder_id = d_folder.id
print(d_dirname)
folder_map[d_dirname] = folder_api.retrieve(d_folder_id)
files_map[d_dirname] = self.client.find_files(d_folder_id)
if d_folder is None:
folder_map[d_parent_dirname].sub_folders.append(folder_map[d_dirname])
# register upload file list
for filename in filenames:
infos.append(
UploadFileInfo(folder_map[d_dirname], files_map[d_dirname], os.path.join(dirpath, filename))
)
return infos
def __multiple_upload(self, infos: list[UploadFileInfo], is_skip_if_exists: bool) -> bool:
"""Send every file, and report whether all of them arrived."""
file_api = FilesApi(self.client.connection)
with ThreadPoolExecutor(max_workers=CONCURRENT) as pool:
pool.map(lambda x: self.__multiple_upload_worker(file_api, x, is_skip_if_exists), infos)
results = pool.map(lambda x: self.__multiple_upload_worker(file_api, x, is_skip_if_exists), infos)
# Consumed inside the block: the results are what carry each worker's verdict.
return all(list(results))
def __multiple_upload_worker(self, file_api: FilesApi, info: UploadFileInfo, is_skip_if_exists: bool) -> None:
def __multiple_upload_worker(self, file_api: FilesApi, info: UploadFileInfo, is_skip_if_exists: bool) -> bool:
basename = os.path.basename(info.path)
file = find_file(info.files, basename)
try:
@@ -103,8 +115,14 @@ class Uploader:
elif not is_skip_if_exists or file.size != os.path.getsize(info.path):
file_api.update(file, info.path)
print(os.path.join(info.folder.path, basename))
except MDRSException as e:
print(f"Error: {e}")
except Exception as e:
# Everything, not just the exceptions the API layer raises: the batch verdict
# is read now that the results are consumed, and a file vanishing between the
# walk and the upload would otherwise end the whole run with a traceback and
# throw away what every other file did.
print(f"Failed: {info.path}: {e}")
return False
return True
class Downloader:
@@ -120,6 +138,21 @@ class Downloader:
password: str | None = None,
excludes: list[str] | None = None,
) -> None:
if not self.__download(remote_path, local_path, is_recursive, is_skip_if_exists, password, excludes):
# Every failure has already been printed against the file it belongs to.
# This is what makes the command as a whole end in failure.
raise UnexpectedException("Some files failed to download.")
def __download(
self,
remote_path: str,
local_path: str,
is_recursive: bool,
is_skip_if_exists: bool,
password: str | None,
excludes: list[str] | None,
) -> bool:
"""Fetch what the remote path names, and report whether every file arrived."""
excludes_clean = excludes or []
# Detect DOI path: "remote:10.xxxx/prefix.ID[/optional/sub/path]"
path_component = remote_path.split(":", 1)[1] if ":" in remote_path else ""
@@ -144,12 +177,11 @@ class Downloader:
file = find_file(r_parent_files, r_basename)
if file is not None:
if self.__check_excludes(excludes_clean, laboratory, r_parent_folder, file):
return
context = DownloadContext(False, is_skip_if_exists, [])
return True
context = DownloadContext(is_skip_if_exists, [])
l_path = os.path.join(l_dirname, r_basename)
context.files.append(DownloadFileInfo(file, l_path))
self.__multiple_download(context)
return
return self.__multiple_download(context)
else:
folder_simple = r_parent_folder.find_sub_folder(r_basename)
if folder_simple is None:
@@ -161,19 +193,17 @@ class Downloader:
if not is_recursive:
# Non-recursive: download only the files at the top level of the DOI folder.
files = self.client.find_files(folder.id)
context = DownloadContext(False, is_skip_if_exists, [])
context = DownloadContext(is_skip_if_exists, [])
for file in files:
if self.__check_excludes(excludes_clean, laboratory, folder, file):
continue
l_path = os.path.join(l_dirname, file.name)
context.files.append(DownloadFileInfo(file, l_path))
self.__multiple_download(context)
return
return self.__multiple_download(context)
folder_api = FoldersApi(self.client.connection)
self.__multiple_download_pickup_recursive_files(
return self.__multiple_download_pickup_recursive_files(
folder_api, laboratory, folder.id, l_dirname, excludes_clean, is_skip_if_exists
)
return
remote, laboratory_name, r_path = self.client.parse_remote_host_with_path(remote_path)
r_path = r_path.rstrip("/")
@@ -189,11 +219,11 @@ class Downloader:
file = find_file(r_parent_files, r_basename)
if file is not None:
if self.__check_excludes(excludes_clean, laboratory, r_parent_folder, file):
return
context = DownloadContext(False, is_skip_if_exists, [])
return True
context = DownloadContext(is_skip_if_exists, [])
l_path = os.path.join(l_dirname, r_basename)
context.files.append(DownloadFileInfo(file, l_path))
self.__multiple_download(context)
return self.__multiple_download(context)
else:
folder = r_parent_folder.find_sub_folder(r_basename)
if folder is None:
@@ -201,7 +231,7 @@ class Downloader:
if not is_recursive:
raise IllegalArgumentException(f"Cannot download `{r_path}`: Is a folder.")
folder_api = FoldersApi(self.client.connection)
self.__multiple_download_pickup_recursive_files(
return self.__multiple_download_pickup_recursive_files(
folder_api, laboratory, folder.id, l_dirname, excludes_clean, is_skip_if_exists
)
@@ -213,47 +243,60 @@ class Downloader:
basedir: str,
excludes: list[str],
is_skip_if_exists: bool,
) -> None:
context = DownloadContext(False, is_skip_if_exists, [])
folder = folder_api.retrieve(folder_id)
files = self.client.find_files(folder.id)
) -> bool:
context = DownloadContext(is_skip_if_exists, [])
try:
folder = folder_api.retrieve(folder_id)
files = self.client.find_files(folder.id)
except Exception as e:
print(f"Failed: {basedir}: {e}")
return False
dirname = os.path.join(basedir, folder.name)
if self.__check_excludes(excludes, laboratory, folder, None):
return
if not os.path.exists(dirname):
os.makedirs(dirname)
return True
try:
# `exist_ok` rather than a prior check: two workers can reach the same parent.
os.makedirs(dirname, exist_ok=True)
except OSError as e:
# One folder the client cannot make locally is not a reason to abandon its
# siblings, which is what this walk now promises.
print(f"Failed: {dirname}: {e}")
return False
print(dirname)
for file in files:
if self.__check_excludes(excludes, laboratory, folder, file):
continue
path = os.path.join(dirname, file.name)
context.files.append(DownloadFileInfo(file, path))
self.__multiple_download(context)
if context.hasError:
raise UnexpectedException("Some files failed to download.")
succeeded = self.__multiple_download(context)
# A folder that lost a file is still a folder whose sub-folders the user asked
# for, so the walk carries on and the verdict is collected for the caller.
for sub_folder in folder.sub_folders:
self.__multiple_download_pickup_recursive_files(
if not self.__multiple_download_pickup_recursive_files(
folder_api, laboratory, sub_folder.id, dirname, excludes, is_skip_if_exists
)
):
succeeded = False
return succeeded
def __multiple_download(self, context: DownloadContext) -> None:
def __multiple_download(self, context: DownloadContext) -> bool:
"""Fetch every file in the batch, and report whether all of them arrived."""
file_api = FilesApi(self.client.connection)
with ThreadPoolExecutor(max_workers=CONCURRENT) as pool:
results = pool.map(
lambda x: self.__multiple_download_worker(file_api, x, context.isSkipIfExists), context.files
)
hasError = next(filter(lambda x: x is False, results), None)
if hasError is not None:
context.hasError = True
# Consumed inside the block, and in full: every worker's verdict counts, not
# just the first refusal.
return all(list(results))
def __multiple_download_worker(self, file_api: FilesApi, info: DownloadFileInfo, is_skip_if_exists: bool) -> bool:
if not is_skip_if_exists or not os.path.exists(info.path) or info.file.size != os.path.getsize(info.path):
try:
file_api.download(info.file, info.path)
except Exception:
print(f"Failed: {info.path}")
if os.path.isfile(info.path):
os.remove(info.path)
except Exception as e:
# Nothing to clear up: a failed transfer writes only to its own scratch
# file beside the destination, and removes that itself.
print(f"Failed: {info.path}: {e}")
return False
print(info.path)
return True