methods to download experiments attachments up and tested

to-do: clean code
This commit is contained in:
2026-05-12 13:36:52 +02:00
parent 07aac3e6b3
commit ccf74fca26

View File

@@ -1,4 +1,5 @@
import os, requests
from getpass import getpass
import elabapi_python as elabapi
@@ -80,16 +81,17 @@ class APIHandler:
entry_data = response.json()
return entry_data
def download_all_attachments_data(self, elabid, entryType="experiments"):
def download_attachment_data(self, elabid, upload_id, entryType="experiments"):
"""
Downloads attachments of a certain eLabFTW experiment (default) or item.
Only returns their binary data. Use method download_attachments_to_disk to save to file.
Downloads a specific attachment of a certain eLabFTW experiment (default) or item.
Only returns its binary data. Use method download_attachment_to_disk to save to file.
NOTE: Output is a dictionary where:
* The keys are the attachments' filenames;
* The values are the binary data for those attachments.
* The key is the attachment's filename;
* The value is the attachment's binary data.
Args:
elabid: eLabFTW internal ID of the selected resource.
upload_id: eLabFTW internal ID of the selected upload.
entryType: Resource type. Anything other than "experiments" or "items" WILL raise an error.
"""
if entryType not in ["experiments", "items"]:
@@ -108,29 +110,33 @@ class APIHandler:
)
uploads_api = elabapi.UploadsApi(api_client)
# Actual uploads (dictionary):
uploads = {
# Scans through the attachments and selects the one with corresponing ID.
attachment = {
upload.real_name: uploads_api.read_upload(
entryType, elabid, upload.id, format="binary", _preload_content=False
entryType, elabid, upload_id, format="binary", _preload_content=False
).data
for upload in uploads_api.read_uploads(entryType, elabid)
if upload.id == upload_id
}
return uploads
return attachment
def download_attachments_to_disk(
def download_attachment_to_disk(
self,
elabid,
upload_id,
entryType="experiments",
dump_dir="output/attachments",
# persistent=True,
):
"""
Downloads attachments of a certain eLabFTW experiment (default) or item.
Downloads a specific attachment of a certain eLabFTW experiment (default) or item.
Downloads their binary data through method download_attachments_data and dumps it to dump_dir.
Returns nothing on success.
Args:
elabid: eLabFTW internal ID of the selected resource.
upload_id: eLabFTW internal ID of the selected upload.
entryType: Resource type. Anything other than "experiments" or "items" WILL raise an error.
dump_dir: Directory to which to save the attachments. Default is "output/attachments".
persistent: [Unused] Decides if the files will stay on disk after all operations are completed.
@@ -142,9 +148,16 @@ class APIHandler:
"You can only download attachments from experiments or items."
)
uploads = download_all_attachments_data(elabid, entryType=entryType)
uploads = self.download_attachment_data(elabid, upload_id, entryType=entryType)
for file in uploads:
raw_data = uploads["file"]
raw_data = uploads[file]
with open(os.path.join(dump_dir, f"exp{elabid}-{file}"), "wb") as f:
f.write(raw_data)
return
# Testing methods
if __name__ == "__main__":
api_key = getpass("Paste API key here [no echo]: ")
handler = APIHandler(api_key=api_key)
handler.download_attachment_to_disk(elabid=58, upload_id=81)