xcoll 0.5.12__py3-none-any.whl → 0.6.1__py3-none-any.whl

xcoll/scattering_routines/geant4/collimasim/src/collimasim/xtrack_collimator.py

@@ -1,556 +0,0 @@
-import re
-import io
-import sys
-import numpy as np
-import warnings
-import json 
-
-import pandas as pd
-
-import xtrack as xt
-import collimasim as cs
-
-import subprocess
-
-from enum import Enum, unique
-from pathlib import Path
-
-from contextlib import redirect_stdout, redirect_stderr, contextmanager
-
-@unique
-class MissingCollimatorAction(Enum):
-    ERROR = "error"
-    WARN  = "warn"
-    SKIP  = "skip"
-
-
-# Suppress some pandas warning that do not apply to the use case at hand
-pd.options.mode.chained_assignment = None
-
-
-def _calc_betagamma(E0, E):
-    gamma = float(E)/E0
-    beta = np.sqrt(1.-(1./gamma)**2)
-
-    return beta*gamma
-
-
-def _norm_to_geom_emittance(norm_emittance, E0, E):
-    betagamma = _calc_betagamma(E0, E)
-    return norm_emittance / betagamma
-
-
-def _geom_to_norm_emittance(geom_emittance, E0, E):
-    betagamma = _calc_betagamma(E0, E)
-    return betagamma * geom_emittance
-
-
-def _get_twiss_header(tfsfile):
-    header = None
-    line_no = 0
-    with open(tfsfile, "r") as filein:
-        for idx, line in enumerate(filein):
-            if line.startswith("*"):  # This is the header line, preamble lines start with @
-                header = line.replace("*", "").strip().split()  # Strip the comment char
-                line_no = idx + 1  # As zero counted
-                break  # End the loop early - information found
-
-    return header, line_no
-
-
-def _load_collimators_tfs(tfsfile):
-    header, header_line_no = _get_twiss_header(tfsfile)
-
-    required_columns = {"KEYWORD", "NAME", "BETX", "BETY", "ALFX", "ALFY", "DX", "DY", "X", "Y", "PT"}
-
-    if not required_columns.issubset(set(required_columns)):
-        raise KeyError("The required columns in the MAD-X"
-                       " TFS file are: {}".format(" ".join(list(required_columns))))
-
-    twiss = pd.read_csv(tfsfile, delim_whitespace=True, skiprows=header_line_no+1,
-                        index_col=False, names=header)
-
-    twiss_coll = twiss[twiss["KEYWORD"] == "COLLIMATOR"] # Collimators only
-    twiss_coll = twiss[list(required_columns)] # Reduce the data fields
-    twiss_coll["NAME"] = twiss_coll["NAME"].str.lower() # Make the names lowercase for easy processing
-
-    twiss_coll.rename(columns={key: key.lower() for key in list(twiss_coll.columns)}, inplace=True)
-    twiss_coll.rename(columns={'pt': 'delta'}, inplace=True) # rename PT to delta for consistency
-    twiss_coll = twiss_coll.set_index("name").T
-
-    return twiss_coll.to_dict()
-
-
-def _load_collimators_xtrack(xt_twiss):
-    required_columns = {"name", "betx", "bety", "alfx", "alfy", "dx", "dy", "x", "y", "delta"}
-    twiss_coll = pd.DataFrame({key: xt_twiss[key] for key in required_columns})
-    twiss_coll = twiss_coll.set_index('name').T
-
-    return twiss_coll.to_dict()
-
-
-def _colldb_format_detector(colldb_file):
-    # Detect the likely format of a colldb file
-    lines = []
-    formats = ('collgaps', 'old_colldb', 'new_colldb', 'yaml_colldb')
-    formats_found = {fmt: False for fmt in formats}
-
-    all_old_colldb_lines = True
-    all_collgaps_lines = True
-    has_yaml_syntax = False
-    with open(colldb_file, 'r') as infile:
-        for l_no, line in enumerate(infile):
-            line = line.strip()
-            if line.startswith("#"):
-                continue  # Comment
-            if len(line.strip()) == 0:
-                continue  # Empty line
-            lines.append(line)
-            # Detect based on the number of items on a line or
-            # special charecters for the case of yaml
-            if line == '---' or ':' in line:
-                has_yaml_syntax = True
-            elif len(line.split()) == 1: # Line from an old CollDB
-                all_collgaps_lines = False
-            elif len(line.split()) == 13:  # Line from collgaps
-                all_old_colldb_lines = False
-            else:
-                all_collgaps_lines = False
-                all_old_colldb_lines = False
-
-    formats_found['yaml_colldb'] = has_yaml_syntax
-    formats_found['old_colldb'] = all_old_colldb_lines
-    formats_found['collgaps'] = all_collgaps_lines
-    # The default case is the new CollDB
-    # The loader there has checking for valid formats
-    formats_found['new_colldb'] = not all_old_colldb_lines \
-                                    and not all_collgaps_lines \
-                                    and not has_yaml_syntax
-    assert sum(formats_found.values()) == 1
-
-    likely_format = [key for key in formats_found if formats_found[key] == True][0]
-    print(f"Detected CollDB format: {likely_format}")
-    return likely_format
-
-
-def _load_colldb_yaml(filename):
-    raise ValueError('Loading of yaml format CollDB not implemented yet.')
-
-
-def _load_colldb_old(filename):
-
-    float_num = r'[-+]?(\d+(\.\d*)?|\.\d+)([eE][-+]?\d+)?'  # Float
-    sep = r'\s+'
-
-    # Not sure what the value 3 from last is, so it is not named
-    coll_re = re.compile(r'''
-    #{sep}
-    (?P<name>.+){sep}
-    (?P<name_lower>.+){sep}
-    (?P<nsigma>{float_num}){sep}
-    (?P<material>[a-zA-Z]+){sep}
-    (?P<length>{float_num}){sep}
-    (?P<angle>{float_num}){sep}
-    ({float_num}){sep}
-    (?P<betax>{float_num}){sep}
-    (?P<betay>{float_num}){sep}
-    '''.format(sep=sep, float_num=float_num), re.VERBOSE)
-
-    with open(filename, "r") as infile:
-        colldb_contents = infile.read()
-
-    # List of dicts for each match (collimator)
-    matches = [m.groupdict() for m in coll_re.finditer(colldb_contents)]
-
-    # Make into a dict by name for easy access
-    collimator_data = {}
-    for m in matches:
-        cname = m["name"].lower().strip()
-        collimator_data[cname] = {"nsigma" : float(m["nsigma"]),
-                                  "angle" : float(m["angle"]),
-                                  "length" : float(m["length"]),
-                                  "material": m["material"],
-                                  }
-
-    #print(collimator_data)
-    return collimator_data
-
-
-def _load_colldb_new(filename):
-    with open(filename, "r") as infile:
-        coll_data_string = ""
-        family_settings = {}
-        family_types = {}
-        onesided = {}
-        tilted = {}
-
-        for l_no, line in enumerate(infile):
-            if line.startswith("#"):
-                continue  # Comment
-            if len(line.strip()) == 0:
-                continue  # Empty line
-            sline = line.split()
-            if len(sline) < 6:
-                if sline[0].lower() == "nsig_fam":
-                    family_settings[sline[1]] = sline[2]
-                    family_types[sline[1]] = sline[3]
-                elif sline[0].lower() == "onesided":
-                    onesided[sline[1]] = int(sline[2])
-                elif sline[0].lower() == "tilted":
-                    tilted[sline[1]] = [float(sline[2]), float(sline[3])]
-                elif sline[0].lower() == "settings":
-                    pass  # Acknowledge and ignore this line
-                else:
-                    raise ValueError(f"Unknown setting {line}")
-            else:
-                coll_data_string += line
-
-    names = ["name", "opening", "material", "length", "angle", "offset"]
-
-    df = pd.read_csv(io.StringIO(coll_data_string), delim_whitespace=True,
-                     index_col=False, skip_blank_lines=True, names=names)
-
-    df["angle"] = np.deg2rad(df["angle"]) # convert to radians
-    df["name"] = df["name"].str.lower() # Make the names lowercase for easy processing
-    df["nsigma"] = df["opening"].apply(lambda s: float(family_settings.get(s, s)))
-    df["type"] = df["opening"].apply(lambda s: family_types.get(s, "UNKNOWN"))
-    df["side"] = df["name"].apply(lambda s: onesided.get(s, 0))
-    df["tilt_left"] = df["name"].apply(lambda s: np.deg2rad(tilted.get(s, [0, 0])[0]))
-    df["tilt_right"] = df["name"].apply(lambda s: np.deg2rad(tilted.get(s, [0, 0])[1]))
-    df = df.set_index("name").T
-
-    # Ensure the collimators marked as one-sided or tilted are actually defined
-    defined_set = set(df.columns) # The data fram was transposed so columns are names
-    onesided_set = set(onesided.keys())
-    tilted_set = set(tilted.keys())
-    if not onesided_set.issubset(defined_set):
-        different = onesided_set - defined_set
-        raise SystemExit('One-sided collimators not defined: {}'.format(", ".join(different)))
-    if not tilted_set.issubset(defined_set):
-        different = tilted_set - defined_set
-        raise SystemExit('Tilted collimators not defined: {}'.format(",".join(different)))
-    return df.to_dict()
-
-
-def _load_collgaps(filename):
-     names = ["id", "name", "angle", "betax",  "betay",  "halfgap", "material",
-              "length", "sigx", "sigy", "tilt1",  "tilt2", "nsigma"]
-
-     df = pd.read_csv(filename, delim_whitespace=True, index_col=False, names=names, header=0, comment='#')
-     df["name"] = df["name"].str.lower() # Make the names lowercase for easy processing
-     df = df.set_index("name").T
-
-     return df.to_dict()
-
-
-def _subprocess_bdsim_get_mass(pdg_id, json_out_file):
-    '''
-    This is worker function for get_mass_from_pdg_id(pdg_id), do not use 
-    on it's own
-    '''
-    # Initialise BDSIM (the Geant4 kernel)
-    dummy_bdsim_file = Path('_dummy_settings.gmad')
-    with open(dummy_bdsim_file, 'w') as bdsimfile:
-        # ignored, just need the file and beam definition to launch bdsim
-        # it needs to be an ion so the ion tables get loaded, in addition to
-        # all the normal particles
-        bdsimfile.write('beam, particle="ion 208 82", momentum=42*GeV;\n')
-
-    # dummy values as we only case about the mass
-    g4link = cs.XtrackInterface(bdsimConfigFile=str(dummy_bdsim_file),
-                                referencePdgId=int(pdg_id),
-                                referenceEk=42, # BDSIM expects GeV
-                                relativeEnergyCut=0.42,
-                                seed=42, referenceIonCharge=0,
-                                batchMode=True)
-
-    mass = g4link.getReferenceMass() * 1e9 # convert to eV
-
-    dummy_bdsim_file.unlink()
-
-    with open(Path(json_out_file), 'w') as outfile:
-        json.dump(obj={'mass_ev': mass}, fp=outfile)
-
-
-def get_mass_from_pdg_id(pdg_id):
-    '''
-    This is a hacky utility function that is neccessary because 
-    BDSIM isn't re-entry safe when loaded from the pybind11 c++ extension,
-    and there is no good way to reload the extension. Subprocess
-    offsers complete isolation so can safely load a dummy BDSIM and get the 
-    mass of the particle.
-    '''
-    # Serialize the argument to pass it to the subprocess
-    kwargs = {'json_out_file': 'reference_mass.json', 'pdg_id': pdg_id}
-    argument_str = json.dumps(kwargs)
-
-    subprocess.run([sys.executable, "-c",
-                    ("import os;"
-                     "import sys;"
-                     "import json;"
-                     "sys.stdout = open(os.devnull, 'w');"
-                     "from collimasim.xtrack_collimator import _subprocess_bdsim_get_mass;"
-                     f"_subprocess_bdsim_get_mass(**json.loads('{argument_str}'))")],
-                     stdout = subprocess.DEVNULL, # Don't need the output from this - chceked later
-                     # stderr = subprocess.DEVNULL,
-                     )
-
-    # The output is in a json file, load and delete when done
-    mass_file_path = Path(kwargs['json_out_file'])
-    if not mass_file_path.exists():
-        raise Exception(f'Coud not load mass for PDG ID {pdg_id}.')
-    
-    with open(mass_file_path, 'r') as infile:
-        mass = json.load(infile)['mass_ev']
-    mass_file_path.unlink()
-    return mass
-
-
-class Geant4CollimationManager:
-
-    def __init__(self, collimator_file, bdsim_config_file, tfs_file, emittance_norm, reference_pdg_id,
-                 reference_kinetic_energy, relative_energy_cut, seed, material_rename_map={}, batchMode=True):
-
-        unit_GeV = 1e9 # GeV to MeV
-
-        # Energy units in Xtrack are eV
-        self.collimator_file = collimator_file
-        self.bdsim_config_file = bdsim_config_file
-        self.tfs_file = tfs_file
-        self.reference_pdg_id = reference_pdg_id
-        self.reference_kinetic_energy = reference_kinetic_energy
-        self.relative_energy_cut = relative_energy_cut
-        self.seed = seed
-
-        self.material_rename_map = material_rename_map
-
-        # Allow for an asymmetric beam via a in iterable emittance assignment
-        try:
-            iter(emittance_norm)
-            self.emit_norm_x = emittance_norm[0]
-            self.emit_norm_y = emittance_norm[1]
-        except TypeError:
-            self.emit_norm_x = emittance_norm
-            self.emit_norm_y = emittance_norm
-
-        # Initialise BDSIM (the Geant4 kernel)
-        self.g4link = cs.XtrackInterface(bdsimConfigFile=self.bdsim_config_file,
-                                         referencePdgId=self.reference_pdg_id,
-                                         referenceEk=self.reference_kinetic_energy / unit_GeV, # BDSIM expects GeV
-                                         relativeEnergyCut=self.relative_energy_cut,
-                                         seed=self.seed, referenceIonCharge=0, batchMode=batchMode)
-                                         # Batch mode disables visualisation
-
-        self.reference_mass = self.g4link.getReferenceMass() * unit_GeV # BDSIM gives the mass in GeV
-
-        # Load the collimator settings and optics separately as not sure if all MAD-X collimators are needed
-        if isinstance(self.tfs_file, xt.twiss.TwissTable):
-            self._collimator_optics = _load_collimators_xtrack(self.tfs_file)
-        elif isinstance(self.tfs_file, str):
-            self._collimator_optics = _load_collimators_tfs(self.tfs_file)
-        else:
-            raise Exception('Collimator optics can only be an Xtrack twiss dict,'
-                            ' or a path to a MAD-X twiss file')
-        if isinstance(self.collimator_file, str):
-            self._collimator_settings = self._load_collimator_data(self.collimator_file)
-        elif isinstance(self.collimator_file, dict):
-            self._collimator_settings = self.collimator_file
-        else:
-            raise Exception(f'Unsupported collimator data fromat {self.collimator_file}')
-
-        self.collimators = {}
-        self._load_collimators()
-        #self._load_collimators_collgaps()
-
-        # Debug
-        #for cname in self.collimators:
-        #    print(cname, self.collimators[cname]["nsigma"], self.collimators[cname]["halfgap"])
-
-        #with open(f"cgaps_{self.collimator_file}", "w") as outfile:
-        #    for cname in self.collimators:
-        #        outfile.write("{} {} {}\n".format(cname,
-        #                                        self.collimators[cname]["nsigma"],
-        #                                        self.collimators[cname]["halfgap"]))
-
-    def _load_collimator_data(self, collimator_file):
-        detected_format = _colldb_format_detector(collimator_file)
-        loader_dispatch = {'collgaps': _load_collgaps, 
-                           'new_colldb': _load_colldb_new, 
-                           'old_colldb': _load_colldb_old,
-                           'yaml_colldb': _load_colldb_yaml}
-
-        data = loader_dispatch[detected_format](collimator_file)
-        return data
-
-    def _calc_collimator_halfgap(self, name):
-        # Calculate the geometric emittances first
-        totalEnergy = self.reference_kinetic_energy + self.reference_mass
-        emit_geom_x = _norm_to_geom_emittance(self.emit_norm_x, self.reference_mass, totalEnergy)
-        emit_geom_y = _norm_to_geom_emittance(self.emit_norm_y, self.reference_mass, totalEnergy)
-
-        betx = self._collimator_optics[name]["betx"]
-        bety = self._collimator_optics[name]["bety"]
-
-        nsigma = self._collimator_settings[name]["nsigma"]
-        angle  = self._collimator_settings[name]["angle"]
-
-        a = nsigma * np.sqrt(betx * emit_geom_x)
-        b = nsigma * np.sqrt(bety * emit_geom_y)
-
-        x = a * np.cos(angle)
-        y = b * np.sin(angle)
-
-        return np.sqrt(x**2 + y**2)
-
-    def _load_collimators(self):
-
-        for cname in self._collimator_settings:
-            cdata = self._collimator_settings[cname]
-            copt = self._collimator_optics[cname]
-
-            if cdata['nsigma'] < 900:
-                halfgap = self._calc_collimator_halfgap(cname)
-
-                mat_def = cdata["material"]
-                material = self.material_rename_map.get(mat_def, mat_def)
-
-                # Compute the offset for the collimators - placed around the closed orbit
-                x_offset = copt['x']
-                y_offset = copt['y']
-
-                self.g4link.addCollimator(cname, material, cdata["length"], 
-                                        apertureLeft=halfgap, apertureRight=halfgap,
-                                        rotation=cdata["angle"], 
-                                        xOffset=x_offset, yOffset=y_offset,
-                                        jawTiltLeft=cdata.get("tilt_left", 0.),
-                                        jawTiltRight=cdata.get("tilt_right", 0.), 
-                                        side=cdata.get("side", 0))
-
-                # Merge all the info about the collimator in the same dictionary for storage
-                self.collimators[cname] = {**cdata, **copt}
-                self.collimators[cname]["halfgap"] = halfgap
-            else:
-                print(f'Collimator {cname} with gap of {cdata["nsigma"]} sigma ignored.')
-
-    def _load_collimators_collgaps(self):
-        collimators = np.genfromtxt(self.collimator_file, dtype=None, encoding=None, comments='#')
-
-        # This would be nicer with pandas, but don't need the dependency just for this one bit
-        for coll in collimators:
-            name = coll[1]
-            material = coll[6]
-            length = float(coll[7])
-            angle = float(coll[2])
-            halfgap = float(coll[5])
-
-            # TODO: add the closed orbit at the collimator
-             # side=0 means both jaws
-            side = 0 # Default for now
-
-            self.g4link.addCollimator(name, material, length, aperture=halfgap*2,
-                                      rotation=angle, xOffset=0, yOffset=0, side=0)
-
-            self.collimators[name] = {"material": material,
-                                      "length": length,
-                                      "halfgap": halfgap,
-                                      "angle": angle,
-                                      "side": side,
-                                      }
-
-    def process_collimator(self, collimator_name, particles):
-        self.g4link.clearData() # Clear the old data - bunch particles and hits
-
-        print(f"Processing collimator: {collimator_name}")
-
-        # This temp delta is necessary because for primary particles, the coordinates are
-        # modified in place. But for the longitudinal plane there are 3 coordinates that must
-        # be updated, so pass a copy of the delta for the update in place and trigger the
-        # correct update of the 3 coordinates later
-        delta_temp = particles._delta.copy()
-
-        # Using a list allows to package the required coordinates without copying
-        coordinates = [particles.x, particles.y, particles.px, particles.py,
-                       particles.zeta, delta_temp, particles.chi, particles.charge_ratio,
-                       particles.s, particles.pdg_id, particles.particle_id, particles.state,
-                       particles.at_element, particles.at_turn]
-
-        self.g4link.addParticles(coordinates)
-        # The collimators must be defined already in the g4manager
-        self.g4link.selectCollimator(collimator_name)
-
-        self.g4link.collimate() # Performs the physical interaction simulation
-
-        # Modifies the primary coordinates in place and returns a list of arrays for the
-        # coordinates of the secondary particles.
-        products = self.g4link.collimateReturn(coordinates)
-
-        # Force the update using the private member _delta
-        # as the update_delta method only updates the delta for active particles
-        particles._delta[:len(delta_temp)] = delta_temp
-        particles.update_delta(delta_temp)
-
-        return products
-
-    def make_xtg4_collimator(self, name):
-        name = name.lower()
-        if name not in self.collimators:
-            raise KeyError(f"Collimator {name} is not defined in the Geant4 model")
-
-        g4coll = cs.Geant4Collimator(name=name, g4manager=self)
-        xtg4coll = xt.BeamInteraction(name=name, interaction_process=g4coll,
-                                      length=self.collimators[name]["length"])
-
-        return xtg4coll
-
-    def place_all_collimators(self, sequence, on_missing=None):
-        # Make the collimators
-        for name in self.collimators:
-            coll = self.make_xtg4_collimator(name)
-            self.place_xtg4_collimator(sequence, coll, on_missing=on_missing)
-
-
-    def place_xtg4_collimator(self, sequence, xtg4_collimator, on_missing=None):
-        '''
-        A function to expand a collimator from a marker or an active-length-only
-        collimator to a full-size element. To achieve that, all the elements found
-        inside the collimator length are discarded, and the outer-most drifts are
-        trimmed to fit the thick collimator.
-        '''
-
-        coll_name = xtg4_collimator.interaction_process.name
-        coll_length = xtg4_collimator.length
-
-        if on_missing is None:
-            on_missing = "warn"
-        exception_type = MissingCollimatorAction(on_missing)
-
-        try:
-            coll_idx = sequence.element_names.index(coll_name.lower())
-        except ValueError:
-            msg = f"Collimator {coll_name} not found in sequence"
-            if exception_type == MissingCollimatorAction.ERROR:
-                raise ValueError(msg)
-            elif exception_type == MissingCollimatorAction.WARN:
-                warnings.warn(msg)
-
-        s_pos = sequence.get_s_elements()
-
-        s_ups = s_pos[coll_idx]
-        s_dns = s_pos[coll_idx + 1]
-        s_cent = (s_ups + s_dns) / 2
-        len_c_xt = s_dns - s_ups
-
-        coll_edge_ups = s_cent - coll_length / 2
-        coll_edge_dns = s_cent + coll_length / 2
-
-        sequence.insert_element(at_s=coll_edge_ups, element=xtg4_collimator, name=coll_name.lower())
-
-
-class Geant4Collimator:
-    def __init__(self, name, g4manager):
-        self.name = name
-        self.g4manager = g4manager
-
-    def interact(self, particles):
-        # The track method is needed for tracking in Xtrack
-        return self.g4manager.process_collimator(self.name, particles)

xcoll/scattering_routines/geant4/collimasim/src/collimasim.egg-info/PKG-INFO

@@ -1,6 +0,0 @@
-Metadata-Version: 2.1
-Name: collimasim
-Version: 0.0.1
-Summary: Python bindings of BDSIM (Geant4) for collimation studies
-Author: Andrey Abramov, Laurie Nevay
-Author-email: andrey.abramov@cern.ch

xcoll/scattering_routines/geant4/collimasim/src/collimasim.egg-info/SOURCES.txt

@@ -1,24 +0,0 @@
-README.md
-pyproject.toml
-setup.py
-src/collimasim/__init__.py
-src/collimasim/pyCollimatorPass.py
-src/collimasim/xtrack_collimator.py
-src/collimasim.egg-info/PKG-INFO
-src/collimasim.egg-info/SOURCES.txt
-src/collimasim.egg-info/dependency_links.txt
-src/collimasim.egg-info/not-zip-safe
-src/collimasim.egg-info/top_level.txt
-tests/test_pyat.py
-tests/test_pyat_passmethod.py
-tests/test_pyat_tracking.py
-tests/test_xtrack.py
-tests/test_xtrack_angle.py
-tests/test_xtrack_colldb_load.py
-tests/test_xtrack_interaction.py
-tests/test_xtrack_interaction_ion.py
-tests/test_xtrack_ions.py
-tests/test_xtrack_lost_energy.py
-tests/test_xtrack_tilt.py
-tests/test_xtrack_tracking.py
-tests/test_xtrack_tracking_ions.py

xcoll/scattering_routines/geant4/collimasim/src/collimasim.egg-info/dependency_links.txt

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-

xcoll/scattering_routines/geant4/collimasim/src/collimasim.egg-info/not-zip-safe

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-

xcoll/scattering_routines/geant4/collimasim/src/collimasim.egg-info/top_level.txt

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-collimasim

xcoll/scattering_routines/geant4/collimasim/tests/README.md

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-# Test suite for collimasim
-
-To run all the tests successfully, both `Xsuite` and `pyAT` must be installed
-
-To run with pytest, the extension `pytest-forked` must be installed
-
-```
-  pip install pytest-forked
-```
-
-and then 
-
-```
-  pytest --forked --continue-on-collection-errors
-```
-in the `collimasim/tests` directory to run the tests.
-
-This is because collimasim is currently not re-entry safe. 
-Once an instance of BDSIM has been launched in a process, 
-no further instances can be launched in that process. 
-This appears to be due to the global state not being reset 
-properly after the BDISM instance terminates. 
-To be investigated in the future. 
-The flag --continue-on-collection-errors ensures that 
-the Xsuite tests run if pyAT isn't isntalled and vice versa.

xcoll/scattering_routines/geant4/collimasim/tests/resources/CollDB_forions.dat

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-# Database for cleaning insertion collimators. Prepared:  23 Jun 2021
-6
-#
-
-TCP.A.B1
-tcp.a.b1
-    1
-C
-0.05
-0
-0.0000000000000000
-  1.1
-  1.1
-
-#
-TCP.B.B1
-tcp.b.b1
-    1
-C
-0.05
-1.5707963267948966
-0.0000000000000000
-  1.1
-  1.1
-#

xcoll/scattering_routines/geant4/collimasim/tests/resources/CollDB_new_example.dat

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-# Automatically converted collimator DB from old format file 'CollDB_HL.data'
-# Families
-NSIG_FAM tcph                 10.000000 PRIMARY
-NSIG_FAM tcpv                 80.000000 PRIMARY
-NSIG_FAM tcsh                 11.500000 SECONDARY
-NSIG_FAM tcsv                 89.500000 SECONDARY
-#
-# Collimators
-# name                                                opening/fam mat.     length[m]    angle[deg]     offset[m]    
-tcp.a.b1                                                     tcph C        0.600000      0.000000      0.000000
-tcp.b.b1                                                     tcpv C        0.600000      90.00000      0.000000
-tcs.b1.b1                                                    tcsv C        1.000000      90.00000      0.000000
-tcs.a1.b1                                                    tcsh C        1.000000      0.000000      0.000000
-tcs.a2.b1                                                    tcsh C        1.000000      0.000000      0.000000
-tcs.b2.b1                                                    tcsv C        1.000000      90.00000      0.000000
-#
-# Additional Collimator Settings
-SETTINGS