ckolbptb / openheart Goto Github PK

• in the README: should it not be docker compose up rather than docker-compose up? The first one works for me the secon option does not
• test data needs to be made publicly available
• provide information about access to log files
• information about creating/finding e.g. openheart_sql_volume missing

The suggested file structure with

Filename.zip
-- Subject1
    -- File1.h5
    -- File2.h5
-- Subject2
    -- File3.h5
    -- File4.h5

does not work because the extraction of the zip file picks up a / and the XNAT server get's confused with folder structures.
To solve this we can simply replace the / characters with a hyphen.

The line

Traceback (most recent call last):
  File "app.py", line 13, in <module>
    from user import UserModel, db, login
  File "./utils/user.py", line 2, in <module>
    from sqlalchemy_mutable.types import MutablePickleType
ModuleNotFoundError: No module named 'sqlalchemy_mutable.types'

Resetting the UID does not work:
This line will throw

The content of element 'mrd:mrdScanData' is not complete.
Replacing xnat:mrScanData with mrd:mrdScanData does not work.

The error is:

openheart-app-1 | 2023-03-17 13:01:04,914 ERROR openheart Thread-72 [xnat.py:217 - get_container_info_for_scan() ]: raw-in not found in container json

However, the reconstructions are still performed correctly and the snapshots are picked up by the webpage.

The website just crashes if one of the files is not a valid ISMRMRD file with dataset and xml/data sub directories.