dclab 0.64.1__cp39-cp39-musllinux_1_2_x86_64.whl → 0.64.3__cp39-cp39-musllinux_1_2_x86_64.whl

dclab/_version.py

@@ -17,5 +17,5 @@ __version__: str
 __version_tuple__: VERSION_TUPLE
 version_tuple: VERSION_TUPLE
 
-__version__ = version = '0.64.1'
-__version_tuple__ = version_tuple = (0, 64, 1)
+__version__ = version = '0.64.3'
+__version_tuple__ = version_tuple = (0, 64, 3)

dclab/definitions/feat_logic.py

@@ -1,6 +1,11 @@
+import re
+
 from . import feat_const
 
 
+ML_SCORE_REGEX = re.compile(r"^ml_score_[a-z0-9]{3}$")
+
+
 def check_feature_shape(name, data):
     """Check if (non)-scalar feature matches with its data's dimensionality
 
@@ -17,11 +22,15 @@ def check_feature_shape(name, data):
         If the data's shape does not match its scalar description
     """
     if len(data.shape) == 1 and not scalar_feature_exists(name):
-        raise ValueError(f"Feature '{name}' is not a scalar feature, but "
-                         "a 1D array was given for `data`!")
+        raise ValueError(
+            f"Feature '{name}' is not a scalar feature, but "
+            "a 1D array was given for `data`!"
+        )
     elif len(data.shape) != 1 and scalar_feature_exists(name):
-        raise ValueError(f"Feature '{name}' is a scalar feature, but the "
-                         "`data` array is not 1D!")
+        raise ValueError(
+            f"Feature '{name}' is a scalar feature, but the "
+            "`data` array is not 1D!"
+        )
 
 
 def feature_exists(name, scalar_only=False):
@@ -56,15 +65,9 @@ def feature_exists(name, scalar_only=False):
     elif not scalar_only and name in feat_const.feature_names:
         # non-scalar feature
         valid = True
-    else:
-        # check whether we have an `ml_score_???` feature
-        valid_chars = "0123456789abcdefghijklmnopqrstuvwxyz"
-        if (name.startswith("ml_score_")
-            and len(name) == len("ml_score_???")
-            and name[-3] in valid_chars
-            and name[-2] in valid_chars
-                and name[-1] in valid_chars):
-            valid = True
+    elif ML_SCORE_REGEX.match(name):
+        # machine-learning score feature ml_score_???
+        valid = True
     return valid
 
 
@@ -93,8 +96,10 @@ def feature_register(name, label=None, is_scalar=True):
     allowed_chars = "abcdefghijklmnopqrstuvwxyz_1234567890"
     feat = "".join([f for f in name if f in allowed_chars])
     if feat != name:
-        raise ValueError("`feature` must only contain lower-case characters, "
-                         f"digits, and underscores; got '{name}'!")
+        raise ValueError(
+            "`feature` must only contain lower-case characters, "
+            f"digits, and underscores; got '{name}'!"
+        )
     if label is None:
         label = f"User-defined feature {name}"
     if feature_exists(name):
@@ -156,22 +161,16 @@ def get_feature_label(name, rtdc_ds=None, with_unit=True):
     TODO: extract feature label from ancillary information when an rtdc_ds is
     given.
     """
-    # TODO: Is there another way of avoiding this circular import?
-    from ..rtdc_dataset.feat_anc_core.ancillary_feature import AncillaryFeature
-    assert feature_exists(name)
     if name in feat_const.feature_name2label:
         label = feat_const.feature_name2label[name]
+    elif ML_SCORE_REGEX.match(name):
+        # use a generic name for machine-learning features
+        label = f"ML score {name[-3:].upper()}"
     else:
-        # First check whether an ancillary feature with that
-        # name exists.
-        for af in AncillaryFeature.features:
-            if af.feature_name == name:
-                labelid = af.data.outputs.index(name)
-                label = af.data.output_labels[labelid]
-                break
-        else:
-            # If that did not work, use a generic name.
-            label = "ML score {}".format(name[-3:].upper())
+        exists = feature_exists(name)
+        msg = f"Could not find label for '{name}'"
+        msg += " (feature does not exist)" if not exists else ""
+        raise ValueError(msg)
     if not with_unit:
         if label.endswith("]") and label.count("["):
             label = label.rsplit("[", 1)[0].strip()

dclab/rtdc_dataset/core.py

@@ -835,9 +835,9 @@ class RTDCBase(abc.ABC):
         identifier = self.config.get("experiment", {}).get("run identifier",
                                                            None)
         if identifier is None:
-            time = self.config.get("experiment", {}).get("time", None)
-            date = self.config.get("experiment", {}).get("date", None)
-            sid = self.config.get("setup", {}).get("identifier", None)
+            time = self.config.get("experiment", {}).get("time", None) or None
+            date = self.config.get("experiment", {}).get("date", None) or None
+            sid = self.config.get("setup", {}).get("identifier", None) or None
             if None not in [time, date, sid]:
                 # only compute an identifier if all of the above are defined.
                 hasher = hashlib.md5(f"{time}_{date}_{sid}".encode("utf-8"))

dclab/rtdc_dataset/feat_basin.py

@@ -458,22 +458,30 @@ class Basin(abc.ABC):
             if not self._measurement_identifier_verified:
                 if self.measurement_identifier is None:
                     # No measurement identifier was presented by the
-                    # referencing dataset. Don't perform any checks.
+                    # referencing dataset. We are in the dark.
+                    # Don't perform any checks.
                     self._measurement_identifier_verified = True
                 else:
-                    if self.mapping == "same":
-                        # When we have identical mapping, then the measurement
-                        # identifier has to match exactly.
-                        verifier = str.__eq__
+                    # This is the measurement identifier of the basin.
+                    basin_identifier = self.get_measurement_identifier()
+                    if basin_identifier is None:
+                        # Again, we are in the dark, because the basin dataset
+                        # does not have an identifier. This is an undesirable
+                        # situation, but there is nothing we can do about it.
+                        self._measurement_identifier_verified = True
                     else:
-                        # When we have non-identical mapping (e.g. exported
-                        # data), then the measurement identifier has to
-                        # partially match.
-                        verifier = str.startswith
-                    self._measurement_identifier_verified = verifier(
-                        self.measurement_identifier,
-                        self.get_measurement_identifier()
-                    )
+                        if self.mapping == "same":
+                            # When we have identical mapping, then the
+                            # measurement identifier has to match exactly.
+                            verifier = str.__eq__
+                        else:
+                            # When we have non-identical mapping (e.g. exported
+                            # data), then the measurement identifier has to
+                            # partially match.
+                            verifier = str.startswith
+                        self._measurement_identifier_verified = verifier(
+                            self.measurement_identifier, basin_identifier)
+
             check_rid = self._measurement_identifier_verified
         else:
             check_rid = True
@@ -538,8 +546,12 @@ class BasinProxy:
 
     def __getitem__(self, feat):
         if feat not in self._features:
-            feat_obj = BasinProxyFeature(feat_obj=self.ds[feat],
-                                         basinmap=self.basinmap)
+            if feat == "contour":
+                raise NotImplementedError("Feature 'contour' cannot be "
+                                          "handled by BasinProxy.")
+            else:
+                feat_obj = BasinProxyFeature(feat_obj=self.ds[feat],
+                                             basinmap=self.basinmap)
             self._features[feat] = feat_obj
         return self._features[feat]
 

{dclab-0.64.1.dist-info → dclab-0.64.3.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: dclab
-Version: 0.64.1
+Version: 0.64.3
 Summary: Library for real-time deformability cytometry (RT-DC)
 Author: Benedikt Hartmann, Eoghan O'Connell, Maik Herbig, Maximilian Schlögel, Nadia Sbaa, Paul Müller, Philipp Rosendahl, Raghava Alajangi
 Maintainer-email: Paul Müller <dev@craban.de>

{dclab-0.64.1.dist-info → dclab-0.64.3.dist-info}/RECORD

@@ -1,7 +1,7 @@
 dclab/__init__.py,sha256=wyJWhElQRPcq09vUqUnuquTU_KHgHxv6wQxuxQ988Iw,1583
-dclab/_version.py,sha256=9r4reeZylDKkIG06-4LPXZLfHirJkjSSEYOAOeaEme8,513
+dclab/_version.py,sha256=JHoO4OvpmaE3KGtpKkOT4qLarDtYaIQTa9jOD_gb43s,513
 dclab/cached.py,sha256=eWTYBiI-HQM7JuPH-oxa5LLnhAX32GpRwlYg2kQ3sTA,2917
-dclab/downsampling.cpython-39-x86_64-linux-gnu.so,sha256=wnfaivm5GKLyiNuPzzM8bNYJnVHamtL8GjY7ndteK14,1483768
+dclab/downsampling.cpython-39-x86_64-linux-gnu.so,sha256=Eo82laqRL7W9Pq7513j2OI_sO2EDYdbbpk265o80bAw,1483768
 dclab/downsampling.pyx,sha256=OK7zbgGLl5gVyoU8ZBHo9EWwb8C9ChavmLNEvQvC9T0,7258
 dclab/http_utils.py,sha256=XHicbHQts5LY3zSNmYqNgAZpKTktotEiwQgJ8d2sBlk,10912
 dclab/kde_contours.py,sha256=UlU64lrzMQUZH11oZndW7xf7NFCzwP3FcVujwuqXDCI,278
@@ -21,7 +21,7 @@ dclab/cli/task_tdms2rtdc.py,sha256=u0L1Fq9rXIeQG9b72SuUIh_qYC6fG2xXxht9_rcdCao,8
 dclab/cli/task_verify_dataset.py,sha256=aqBNCA5pjBL6r9wdEgzmSl5BWPIBEgPAmoQpeFw4Nts,2705
 dclab/definitions/__init__.py,sha256=56VL7rNTjP61gpGgN2GEUKicds2aBz_nWNwzfNxO_l8,2781
 dclab/definitions/feat_const.py,sha256=3zii5bXN0d0lMtkiI8dR9ivNlNQYosZASAlOg1UKKPA,9634
-dclab/definitions/feat_logic.py,sha256=SXsSlAusgtE3uXcPu84dQwYZ07zxmV37DmPednA3_dM,5823
+dclab/definitions/feat_logic.py,sha256=_Rr2vK-nbRNjxk5Kf8Iohs_Q3jzUe9EZJgxB9vMwxwE,5379
 dclab/definitions/meta_const.py,sha256=zqE-SrD2tJMCFWdtp_IenwnbIQg0lulvbQAw9dK0Gho,13125
 dclab/definitions/meta_logic.py,sha256=wCgb7DPRHaR8DCWw_VbwNkpslUnazzWfgX0iS8oEe90,4194
 dclab/definitions/meta_parse.py,sha256=YdaTdM8DAMsIFn5ITH9OHYGTXeAOBGWtx22oVjxXcWk,2393
@@ -37,7 +37,7 @@ dclab/external/skimage/__init__.py,sha256=-B2QUKHAFzQuBWuuKvPDC5JIl0Zb-x3OGmbwPa
 dclab/external/skimage/_find_contours.py,sha256=16v5eeTZBmevG8SSuXtJ6yUpVPhwfSmtc8pDD0nuuOU,9340
 dclab/external/skimage/_find_contours_cy.cpython-39-x86_64-linux-gnu.so,sha256=JXzKyRa9rWsmzTzzkoDH4uDqME1wEMWUR4MPQRycx6k,1093120
 dclab/external/skimage/_find_contours_cy.pyx,sha256=pZJOBhMHzYEMkcz4WQVyjn7jDNrdjCfet47FU1hRAxk,7161
-dclab/external/skimage/_pnpoly.cpython-39-x86_64-linux-gnu.so,sha256=EHYkrjuLby_l_I0jaZSjoEvda-bYOfJSiqzy_JPow8k,1198928
+dclab/external/skimage/_pnpoly.cpython-39-x86_64-linux-gnu.so,sha256=xIIm4PqK7E8qnaaiWZ_FYGSN907Gsr21Jbzp3BO2uYg,1198928
 dclab/external/skimage/_pnpoly.pyx,sha256=Qdn6xPazDschBqbr46DzB75MB2MnqvdnoTSBMK7kUGE,2504
 dclab/external/skimage/measure.py,sha256=y1idCqD9TUxp3-QnOiWR_d674OKaeqBJ4MN2-gVP6ro,247
 dclab/external/skimage/pnpoly.py,sha256=r8hFNiTz5XlUoNZjosqA0iyv1FPn0l7ewbplgFgkdaw,1347
@@ -87,9 +87,9 @@ dclab/rtdc_dataset/__init__.py,sha256=MUHSGVQJ4Zc0IyU2lf01dpDWyOyNveHip-UjSkmPNv
 dclab/rtdc_dataset/check.py,sha256=lJNaz4QTe2WNlxik6zSohRHTiAYuP_bKOzSDjPGTUS0,35006
 dclab/rtdc_dataset/config.py,sha256=MvBteFya3R6Ch3U6UgTakCsJoBgVykTxS_Z25STWPHU,17432
 dclab/rtdc_dataset/copier.py,sha256=-2ISiOs4ytxN_ttXQGhaepuD2Ppy80G9UlDSZVyEoOU,14175
-dclab/rtdc_dataset/core.py,sha256=p1Wy9Dq1Ny4i-cfvgPfCZov_lQAhGz0--x59j-g4mTs,34753
+dclab/rtdc_dataset/core.py,sha256=LjddGHdqZINXKUQcvCyCDmOofdBzyJIXN_z_C-zWGnM,34777
 dclab/rtdc_dataset/export.py,sha256=Ukmdz-Mm9iei6vhfp1lh7oNQiAbXvA2o3tRx1XlBWCM,33416
-dclab/rtdc_dataset/feat_basin.py,sha256=i1J6iKQQEJXdi3u-TB9y_OdxbkFPBK6_G2jeaGcBsLY,26172
+dclab/rtdc_dataset/feat_basin.py,sha256=iBGhuRkIy-zbonIjYHCQdLd3V3_cebpBfDTvqyLzJK4,26921
 dclab/rtdc_dataset/feat_temp.py,sha256=XbDIS1iUUkRH0Zp9uVlwvK_untJ7hkOnKshK1Drsnt8,3694
 dclab/rtdc_dataset/filter.py,sha256=AFPUBzOIi3pqXgUdMQ5CIi9ZeGOKC71rfSZKLMLgtog,10023
 dclab/rtdc_dataset/fmt_dict.py,sha256=gumVQOiVVDFUKow_483PY7cxInqo-NiBBnBhIU8s4lg,3009
@@ -134,9 +134,9 @@ dclab/rtdc_dataset/fmt_tdms/event_mask.py,sha256=eZiDHAGG3MCVckEMHsV-YBbL-pETVLo
 dclab/rtdc_dataset/fmt_tdms/event_trace.py,sha256=Vkym0QKSw2mq1XZl5n8wDkgHXmaZwQGiMAV5AuRSJkE,5215
 dclab/rtdc_dataset/fmt_tdms/exc.py,sha256=WzrMqnyrzp8gsT8Pf7JKqGGv43ewx7d_qgtirURppRI,813
 dclab/rtdc_dataset/fmt_tdms/naming.py,sha256=biI9l1EO6BuSYgwZG0deacj4i1fMHQcW78AKXEcm5Wc,5373
-dclab-0.64.1.dist-info/METADATA,sha256=WoNkTGPhcp_6fJpJQ2r9HPAJoxE_lRtwE4mQGj56tCE,4766
-dclab-0.64.1.dist-info/WHEEL,sha256=1lQ8uVaF0e0KhYU1_N6mtUH8lO3rq4o3quRVE11_OcQ,110
-dclab-0.64.1.dist-info/entry_points.txt,sha256=eOpjgznu-eW-9utUpLU-77O5098YyUEgGF3ksGMdtec,273
-dclab-0.64.1.dist-info/top_level.txt,sha256=irvwZMgs1edY1Zj60ZFk7Almb9Zhk4k6E6aC4YPFnnM,6
-dclab-0.64.1.dist-info/RECORD,,
-dclab-0.64.1.dist-info/licenses/LICENSE,sha256=gLDaVZWRrlnLdyfOrR0qfWjLbOVcjvoJ-kCLUK0fyXA,15360
+dclab-0.64.3.dist-info/METADATA,sha256=j9pzLR5wQCpAnhWmOjvo8yH9ijCimv5H1_CGlxM-Los,4766
+dclab-0.64.3.dist-info/WHEEL,sha256=1lQ8uVaF0e0KhYU1_N6mtUH8lO3rq4o3quRVE11_OcQ,110
+dclab-0.64.3.dist-info/entry_points.txt,sha256=eOpjgznu-eW-9utUpLU-77O5098YyUEgGF3ksGMdtec,273
+dclab-0.64.3.dist-info/top_level.txt,sha256=irvwZMgs1edY1Zj60ZFk7Almb9Zhk4k6E6aC4YPFnnM,6
+dclab-0.64.3.dist-info/RECORD,,
+dclab-0.64.3.dist-info/licenses/LICENSE,sha256=gLDaVZWRrlnLdyfOrR0qfWjLbOVcjvoJ-kCLUK0fyXA,15360