(base) D:\pymedphys\config>orchestration

(base) D:\pymedphys\config>SET PYTHON_DIR="C:\Users\physics\Miniconda3\"

(base) D:\pymedphys\config>cd "C:\Users\physics\Miniconda3\"

(base) D:\pymedphys\config>SET PATH="C:\Users\physics\Miniconda3\";"C:\Users\physics\Miniconda3\"\Scripts;""C:\Users\physics\Miniconda3\";"C:\Users\physics\Miniconda3\"\Scripts;"C:\Users\physics\Miniconda3;C:\Users\physics\Miniconda3\Library\mingw-w64\bin;C:\Users\physics\Miniconda3\Library\usr\bin;
C:\Users\physics\Miniconda3\Library\bin;C:\Users\physics\Miniconda3\Scripts;C:\Users\physics\Miniconda3\bin;C:\Users\physics\Miniconda3\condabin;C:\Program Files\ImageMagick-7.0.10-Q16;C:\Program Files (x86)\Common Files\Oracle\Java\javapath;C:\ProgramData\Oracle\Java\javapath;C:\Windows\system32;C:
\Windows;C:\Windows\System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0;C:\Program Files (x86)\MathWorks\MATLAB Component Runtime\v72\runtime\win32;C:\Windows\System32\WindowsPowerShell\v1.0;C:\Program Files (x86)\MATLAB\MATLAB Compiler Runtime\v713\runtime\win32;C:\Windows\System32\WindowsPowe
rShell\v1.0;C:\Windows\System32\WindowsPowerShell\v1.0;.""

(base) D:\pymedphys\config>pymedphys logfile orchestration -m C:\Users\physics\.pymedphys\data\config_mosaiq_sql.csv -l C:\Users\physics\.pymedphys\data\config_linac_details.csv D:\pymedphys\TRF
Data directory used:
    D:\pymedphys\TRF

Mosaiq SQL configuration used:
{
    "Farrer_Park": {
        "timezone": "Asia/Singapore",
        "mosaiq_sql_server": "MOSAIQCLSQL:1433"
    }
}

Linac configuration used:
{
    "3316": {
        "centre": "Farrer_Park",
        "ip": "172.31.255.2"
    },
    "4181": {
        "centre": "Farrer_Park",
        "ip": "172.31.255.52"
    }
}

Fetching diagnostic zip files from Linacs...

Fetching diagnostic zip files from 3316 @ 172.31.255.2
Found 1 diagnostic zip files:
    SDD+ELEKTA+4+0+405+1+EB+20200603+151842.zip has already been copied.

Fetching diagnostic zip files from 4181 @ 172.31.255.52
Found 4 diagnostic zip files:
    SDD+TCC311066+4+0+405+1+RM+20200608+230113.zip has already been copied.
    SDD+TCC311066+4+0+405+1+RM+20200518+230112.zip has already been copied.
    SDD+TCC311066+4+0+405+1+RM+20200601+230113.zip has already been copied.
    SDD+TCC311066+4+0+405+1+EB+20200528+180456.zip has already been copied.

Extracting trf logfiles from diagnostics zip files...
There are 0 diagnostic zips which need to be extracted
Indexing logfiles...

Connecting to Mosaiq SQL servers...
Globbing index directory...

Hashing a chunk of logfiles (1/17)
..................................................

Header(machine='3316', date='20/05/26 00:02:07 Z', timezone='+08:00', field_label='06', field_name='6MeV')
No Mosaiq entries were found for 06/6MeV at 2020-05-26 08:02:07
Traceback (most recent call last):
  File "c:\users\physics\miniconda3\lib\site-packages\pymedphys\labs\managelogfiles\index.py", line 176, in file_ready_to_be_indexed
    buffer=240,
  File "c:\users\physics\miniconda3\lib\site-packages\pymedphys\_mosaiq\delivery.py", line 161, in get_mosaiq_delivery_details
    field_label, field_name, delivery_time
pymedphys._mosaiq.delivery.NoMosaiqEntries: No Mosaiq entries were found for 06/6MeV at 2020-05-26 08:02:07

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "c:\users\physics\miniconda3\lib\runpy.py", line 193, in _run_module_as_main
    "__main__", mod_spec)
  File "c:\users\physics\miniconda3\lib\runpy.py", line 85, in _run_code
    exec(code, run_globals)
  File "C:\Users\physics\Miniconda3\Scripts\pymedphys.exe\__main__.py", line 9, in <module>
  File "c:\users\physics\miniconda3\lib\site-packages\pymedphys\cli\main.py", line 85, in pymedphys_cli
    args.func(args)
  File "c:\users\physics\miniconda3\lib\site-packages\pymedphys\labs\managelogfiles\orchestration.py", line 121, in orchestration_cli
    orchestration(mosaiq_sql, linac_details, data_directory)
  File "c:\users\physics\miniconda3\lib\site-packages\pymedphys\labs\managelogfiles\orchestration.py", line 80, in orchestration
    index_logfiles(mosaiq_sql, linac_details, logfile_data_directory)
  File "c:\users\physics\miniconda3\lib\site-packages\pymedphys\labs\managelogfiles\index.py", line 311, in index_logfiles
    centre_server_map,
  File "c:\users\physics\miniconda3\lib\site-packages\pymedphys\labs\managelogfiles\index.py", line 181, in file_ready_to_be_indexed
    rename_and_handle_fileexists(to_be_indexed_dict[filehash], new_filepath)
  File "c:\users\physics\miniconda3\lib\site-packages\pymedphys\labs\managelogfiles\index.py", line 109, in rename_and_handle_fileexists
    os.rename(old_filepath, new_filepath)
FileNotFoundError: [WinError 3] The system cannot find the path specified: 'D:\\pymedphys\\TRF\\to_be_indexed\\20_05_26 00_02_07 Z 06_6MeV.trf' -> 'D:\\pymedphys\\TRF\\no_mosaiq_record_found\\20_05_26 00_02_07 Z 06_6MeV.trf'

(base) D:\pymedphys\config>