Demo of the instrument database API

Imports

%load_ext autoreload
%autoreload 2

from instrumentdatabaseapi import instrumentdatabaseapi as API

Initialize the API

Setup the repository with defaults

repo = API.Repository()

Get informations about the repository

 print(repo)

URL: https://github.com/PaNOSC-ViNYL/instrument_database.git
local_dir: /dev/shm/instrumentDBAPI/

Initialize the repository making a copy in local

repo.init(local_repo="./local_repo/")

---------------------------------------------------------------------------
GitCommandError                           Traceback (most recent call last)
<ipython-input-21-4e641cef086b> in <module>
----> 1 repo.init(local_repo="./local_repo/")

/tmp/instrumentDataBaseAPI/instrumentdatabaseapi/instrumentdatabaseapi.py in init(self, url, local_repo, branch)
     53         self.__local_repo = local_repo
     54
---> 55         repo = git.Repo.clone_from(self.__url, self.__local_repo, branch=branch)
     56         assert not repo.bare
     57         sys.path.append(self.__institutes_absdir())

~/.local/lib/python3.6/site-packages/git/repo/base.py in clone_from(cls, url, to_path, progress, env, multi_options, **kwargs)
   1109         if env is not None:
   1110             git.update_environment(**env)
-> 1111         return cls._clone(git, url, to_path, GitCmdObjectDB, progress, multi_options, **kwargs)
   1112
   1113     def archive(self, ostream: Union[TextIO, BinaryIO], treeish: Optional[str] = None,

~/.local/lib/python3.6/site-packages/git/repo/base.py in _clone(cls, git, url, path, odb_default_type, progress, multi_options, **kwargs)
   1047
   1048             log.debug("Cmd(%s)'s unused stdout: %s", cmdline, stdout)
-> 1049             finalize_process(proc, stderr=stderr)
   1050
   1051         # our git command could have a different working dir than our actual

~/.local/lib/python3.6/site-packages/git/util.py in finalize_process(proc, **kwargs)
    368     """Wait for the process (clone, fetch, pull or push) and handle its errors accordingly"""
    369     ## TODO: No close proc-streams??
--> 370     proc.wait(**kwargs)
    371
    372

~/.local/lib/python3.6/site-packages/git/cmd.py in wait(self, stderr)
    445                     errstr = read_all_from_possibly_closed_stream(self.proc.stderr)
    446                     log.debug('AutoInterrupt wait stderr: %r' % (errstr,))
--> 447                     raise GitCommandError(remove_password_if_present(self.args), status, errstr)
    448             # END status handling
    449             return status

GitCommandError: Cmd('git') failed due to: exit code(128)
  cmdline: git clone -v --branch=shervin https://github.com/PaNOSC-ViNYL/instrument_database.git ./local_repo/
  stderr: 'fatal: destination path './local_repo' already exists and is not an empty directory.
'

repo = API.Repository(local_repo="/opt/panosc/instrument_database/")
print(repo)

URL: https://github.com/PaNOSC-ViNYL/instrument_database.git
local_dir: /opt/panosc/instrument_database/

Print list of available institutes

repo.ls_institutes()

 - ILL

Run the backengine

calculator.backengine()

0

Look at the data and store as hdf5

calculator.data

array([[0.07471297, 0.00703423, 0.92835525, ..., 0.83050226, 0.93011749,
        0.10575778],
       [0.30465388, 0.36400513, 0.48903381, ..., 0.0438568 , 0.39087367,
        0.97940832],
       [0.61994805, 0.84566645, 0.42535347, ..., 0.94919735, 0.17939005,
        0.74872113],
       ...,
       [0.22103305, 0.07844426, 0.8127275 , ..., 0.4273249 , 0.78210725,
        0.59653636],
       [0.00889755, 0.40566176, 0.33960702, ..., 0.2634355 , 0.34068678,
        0.99275201],
       [0.99495603, 0.18621833, 0.25057866, ..., 0.33598942, 0.10660242,
        0.20565293]])

calculator.saveH5(calculator.output_path)

Save the parameters to a human readable json file.

parameters.to_json("my_parameters.json")

Save calculator to binary dump.

dumpfile = calculator.dump()

Load back parameters

new_parameters = Parameters.from_json("my_parameters.json")

6000.0

Look ath the photon energy of the restored parameters.

new_parameters.photon_energy

Reconstruct the dumped calculator.

reloaded_calculator = RandomImageCalculator(dumpfile=dumpfile)

Query the data from the reconstructed calculator.

reloaded_calculator.data

Look at the photon energy of the reconstructed calculator.

reloaded_calculator.parameters.photon_energy

6000.0