xtgeo 4.10.0__cp39-cp39-win_amd64.whl → 4.11.0__cp39-cp39-win_amd64.whl

xtgeo/common/version.py

@@ -1,7 +1,14 @@
 # file generated by setuptools-scm
 # don't change, don't track in version control
 
-__all__ = ["__version__", "__version_tuple__", "version", "version_tuple"]
+__all__ = [
+    "__version__",
+    "__version_tuple__",
+    "version",
+    "version_tuple",
+    "__commit_id__",
+    "commit_id",
+]
 
 TYPE_CHECKING = False
 if TYPE_CHECKING:
@@ -9,13 +16,19 @@ if TYPE_CHECKING:
     from typing import Union
 
     VERSION_TUPLE = Tuple[Union[int, str], ...]
+    COMMIT_ID = Union[str, None]
 else:
     VERSION_TUPLE = object
+    COMMIT_ID = object
 
 version: str
 __version__: str
 __version_tuple__: VERSION_TUPLE
 version_tuple: VERSION_TUPLE
+commit_id: COMMIT_ID
+__commit_id__: COMMIT_ID
 
-__version__ = version = '4.10.0'
-__version_tuple__ = version_tuple = (4, 10, 0)
+__version__ = version = '4.11.0'
+__version_tuple__ = version_tuple = (4, 11, 0)
+
+__commit_id__ = commit_id = 'gee9361dd9'

xtgeo/cube/_cube_window_attributes.py

@@ -63,6 +63,7 @@ class CubeAttrs:
     _upper: RegularSurface | None = None  # upper surf, resampled to cube map resolution
     _lower: RegularSurface | None = None  # lower surf, resampled to cube map resolution
     _min_thickness_mask: RegularSurface | None = None  # mask for min. thickness trunc.
+    _mask_map_by_traceidcode: RegularSurface | None = None  # mask for traceidcode 2
 
     _result_attr_maps: dict = field(default_factory=dict)  # holds the resulting maps
 
@@ -94,6 +95,7 @@ class CubeAttrs:
             else self.lower_surface
         )
 
+        # the template surface is the topology that defines the resulting attribute maps
         self._template_surface = (
             upper
             if isinstance(self.upper_surface, (float, int))
@@ -184,7 +186,7 @@ class CubeAttrs:
         from xtgeo import Cube  # avoid circular import by having this here
 
         cubev = self.cube.values.copy()  # copy, so we don't change the input instance
-        cubev[self.cube.traceidcodes == 2] = np.nan  # set dead traces to nan
+        cubev[self.cube.traceidcodes == 2] = 0.0  # set traceidcode 2 to zero
 
         # Create a boolean mask based on the threshold
         mask = self._depth_array < self._outside_depth
@@ -311,13 +313,20 @@ class CubeAttrs:
         attr_map = self._upper.copy()
         attr_map.values = np.ma.masked_invalid(values)
 
+        # apply mask for the cube's dead traces (traceidcode 2)
+        attr_map.values = np.ma.masked_where(
+            self.cube.traceidcodes == 2, attr_map.values
+        )
+
         # now resample to the original input map
         attr_map_resampled = self._template_surface.copy()
         attr_map_resampled.resample(attr_map)
 
-        attr_map_resampled.values = np.ma.masked_where(
-            self.upper_surface.values.mask, attr_map_resampled.values
-        )
+        # Use template_surface consistently for masking (it's already set correctly)
+        if hasattr(self._template_surface.values, "mask"):
+            attr_map_resampled.values = np.ma.masked_where(
+                self._template_surface.values.mask, attr_map_resampled.values
+            )
 
         self._result_attr_maps[attr_name] = attr_map_resampled
 

xtgeo/grid3d/_grid_etc1.py

@@ -1053,13 +1053,18 @@ def inactivate_inside(
         raise RuntimeError("Problems with one or more polygons. Not closed?")
 
 
-def collapse_inactive_cells(self: Grid) -> None:
+def collapse_inactive_cells(self: Grid, internal: bool = True) -> None:
     """Collapse inactive cells."""
-    self._set_xtgformat1()
+    logger.debug("Collapsing inactive cells...")
+    self._set_xtgformat2()
 
-    _cxtgeo.grd3d_collapse_inact(
-        self.ncol, self.nrow, self.nlay, self._zcornsv, self._actnumsv
-    )
+    grid_cpp = _internal.grid3d.Grid(self)
+    new_zcornsv = grid_cpp.collapse_inactive_cells(collapse_internal=internal)
+
+    if new_zcornsv is not None:
+        self._zcornsv = new_zcornsv
+
+    logger.debug("Collapsing inactive cells done")
 
 
 def copy(self: Grid) -> Grid:

xtgeo/grid3d/grid.py

@@ -2295,7 +2295,7 @@ class Grid(_Grid3D):
         * maxangle_topbase_proj (degrees) max angle projected (bird view)
         * minangle_sides (degress) minimum angle, all side surfaces
         * maxangle_sides (degress) maximum angle, all side surfaces
-        * collapsed (int) Integer, 1 of one or more corners are collpased in Z
+        * collapsed (int) Integer, 1 of one or more corners are collapsed in Z
         * faulted (int) Integer, 1 if cell is faulted (one or more neighbours offset)
         * negative_thickness (int) Integer, 1 if cell has negative thickness
         * concave_proj (int) 1 if cell is concave seen from projected bird view
@@ -2332,7 +2332,7 @@ class Grid(_Grid3D):
         inside: bool = True,
         force_close: bool = False,
     ) -> None:
-        """Inacativate grid inside a polygon.
+        """Inactivate grid inside a polygon.
 
         The Polygons instance may consist of several polygons. If a polygon
         is open, then the flag force_close will close any that are not open
@@ -2359,14 +2359,30 @@ class Grid(_Grid3D):
         layer_range: tuple[int, int] | None = None,
         force_close: bool = False,
     ) -> None:
-        """Inacativate grid outside a polygon."""
+        """Inactivate grid outside a polygon."""
         self.inactivate_inside(
             poly, layer_range=layer_range, inside=False, force_close=force_close
         )
 
-    def collapse_inactive_cells(self) -> None:
-        """Collapse inactive layers where, for I J with other active cells."""
-        _grid_etc1.collapse_inactive_cells(self)
+    def collapse_inactive_cells(self, internal: bool = True) -> None:
+        """Collapse inactive layers per I J column (~vertically).
+
+        Seen by I,J column, the inactive cells are collapsed to the first active cell in
+        the column. First transversed from top, then from bottom. If no active cells in
+        the column, the (invisible) Z coordinates are averaged to one common location.
+
+        If `internal` is True (default), then also internal inactive cells (i.e.
+        inactive "hole" surrounded by active cells) are collapsed. In this case the Z
+        coordinates of the adjacent active cells are moved to fill the gap.
+
+        The current grid instance will be updated.
+
+        Args:
+            internal: If True (default), then the internal collapse is also done.
+
+        .. versionchanged:: 4.11 Added ``internal option``, algorithm is improved
+        """
+        _grid_etc1.collapse_inactive_cells(self, internal=internal)
 
     def crop(
         self,

xtgeo/metadata/metadata.py

@@ -10,10 +10,17 @@ The metadata works through the various datatypes in XTGeo. For example::
 
 """
 
+from __future__ import annotations
+
+from typing import TYPE_CHECKING, Any
+
 import xtgeo
 from xtgeo.common.constants import UNDEF
 from xtgeo.common.log import null_logger
 
+if TYPE_CHECKING:
+    from datetime import datetime
+
 logger = null_logger(__name__)
 
 
@@ -50,10 +57,10 @@ class _OptionalMetaData:
         self._name = "A Longer Descriptive Name e.g. from SMDA"
         self._shortname = "TheShortName"
         self._datatype = None
-        self._md5sum = None
+        self._md5sum: str | None = None
         self._description = "Some description"
         self._crs = None
-        self._datetime = None
+        self._datetime: datetime | None = None
         self._deltadatetime = None
         self._visuals = {"colortable": "rainbow", "lower": None, "upper": None}
         self._domain = "depth"
@@ -68,29 +75,29 @@ class _OptionalMetaData:
         self._source = "unknown"
 
     @property
-    def name(self):
+    def name(self) -> str:
         return self._name
 
     @name.setter
-    def name(self, newname):
+    def name(self, newname: str) -> None:
         # TODO: validation
         self._name = newname
 
     @property
-    def datetime(self):
+    def datetime(self) -> datetime | None:
         return self._datetime
 
     @datetime.setter
-    def datetime(self, newdate):
+    def datetime(self, newdate: datetime) -> None:
         # TODO: validation
         self._datetime = newdate
 
     @property
-    def shortname(self):
+    def shortname(self) -> str:
         return self._shortname
 
     @shortname.setter
-    def shortname(self, newname):
+    def shortname(self, newname: str) -> None:
         if not isinstance(newname, str):
             raise ValueError("The shortname must be a string.")
         if len(newname) >= 32:
@@ -99,11 +106,11 @@ class _OptionalMetaData:
         self._shortname = newname
 
     @property
-    def description(self):
+    def description(self) -> str:
         return self._description
 
     @description.setter
-    def description(self, newstr):
+    def description(self, newstr: str) -> None:
         if not isinstance(newstr, str):
             raise ValueError("The description must be a string.")
         if len(newstr) >= 64:
@@ -115,7 +122,7 @@ class _OptionalMetaData:
         self._description = newstr
 
     @property
-    def md5sum(self):
+    def md5sum(self) -> str | None:
         """Set or get the md5 checksum of file content.
 
         See generate_hash() method in e.g. RegularSurface.
@@ -123,11 +130,11 @@ class _OptionalMetaData:
         return self._md5sum
 
     @md5sum.setter
-    def md5sum(self, newhash):
+    def md5sum(self, newhash: str) -> None:
         # TODO: validation
         self._md5sum = newhash
 
-    def get_meta(self):
+    def get_meta(self) -> dict[str, Any]:
         """Return metadata as an dict."""
         meta = {}
         for key in self.__slots__:

{xtgeo-4.10.0.dist-info → xtgeo-4.11.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: xtgeo
-Version: 4.10.0
+Version: 4.11.0
 Summary: XTGeo is a Python library for 3D grids, surfaces, wells, etc
 Keywords: grids,surfaces,wells,cubes
 Author-Email: Equinor <fg_fmu-atlas@equinor.com>

xtgeo-4.11.0.dist-info/RECORD

@@ -0,0 +1,117 @@
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{xtgeo-4.10.0.dist-info → xtgeo-4.11.0.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: scikit-build-core 0.11.4
+Generator: scikit-build-core 0.11.5
 Root-Is-Purelib: false
 Tag: cp39-cp39-win_amd64
 

xtgeo/include/eigen3/Eigen/Cholesky

@@ -1,45 +0,0 @@
-// This file is part of Eigen, a lightweight C++ template library
-// for linear algebra.
-//
-// This Source Code Form is subject to the terms of the Mozilla
-// Public License v. 2.0. If a copy of the MPL was not distributed
-// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
-
-#ifndef EIGEN_CHOLESKY_MODULE_H
-#define EIGEN_CHOLESKY_MODULE_H
-
-#include "Core"
-#include "Jacobi"
-
-#include "src/Core/util/DisableStupidWarnings.h"
-
-/** \defgroup Cholesky_Module Cholesky module
-  *
-  *
-  *
-  * This module provides two variants of the Cholesky decomposition for selfadjoint (hermitian) matrices.
-  * Those decompositions are also accessible via the following methods:
-  *  - MatrixBase::llt()
-  *  - MatrixBase::ldlt()
-  *  - SelfAdjointView::llt()
-  *  - SelfAdjointView::ldlt()
-  *
-  * \code
-  * #include <Eigen/Cholesky>
-  * \endcode
-  */
-
-#include "src/Cholesky/LLT.h"
-#include "src/Cholesky/LDLT.h"
-#ifdef EIGEN_USE_LAPACKE
-#ifdef EIGEN_USE_MKL
-#include "mkl_lapacke.h"
-#else
-#include "src/misc/lapacke.h"
-#endif
-#include "src/Cholesky/LLT_LAPACKE.h"
-#endif
-
-#include "src/Core/util/ReenableStupidWarnings.h"
-
-#endif // EIGEN_CHOLESKY_MODULE_H

xtgeo/include/eigen3/Eigen/CholmodSupport

@@ -1,48 +0,0 @@
-// This file is part of Eigen, a lightweight C++ template library
-// for linear algebra.
-//
-// This Source Code Form is subject to the terms of the Mozilla
-// Public License v. 2.0. If a copy of the MPL was not distributed
-// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
-
-#ifndef EIGEN_CHOLMODSUPPORT_MODULE_H
-#define EIGEN_CHOLMODSUPPORT_MODULE_H
-
-#include "SparseCore"
-
-#include "src/Core/util/DisableStupidWarnings.h"
-
-extern "C" {
-  #include <cholmod.h>
-}
-
-/** \ingroup Support_modules
-  * \defgroup CholmodSupport_Module CholmodSupport module
-  *
-  * This module provides an interface to the Cholmod library which is part of the <a href="http://www.suitesparse.com">suitesparse</a> package.
-  * It provides the two following main factorization classes:
-  * - class CholmodSupernodalLLT: a supernodal LLT Cholesky factorization.
-  * - class CholmodDecomposiiton: a general L(D)LT Cholesky factorization with automatic or explicit runtime selection of the underlying factorization method (supernodal or simplicial).
-  *
-  * For the sake of completeness, this module also propose the two following classes:
-  * - class CholmodSimplicialLLT
-  * - class CholmodSimplicialLDLT
-  * Note that these classes does not bring any particular advantage compared to the built-in
-  * SimplicialLLT and SimplicialLDLT factorization classes.
-  *
-  * \code
-  * #include <Eigen/CholmodSupport>
-  * \endcode
-  *
-  * In order to use this module, the cholmod headers must be accessible from the include paths, and your binary must be linked to the cholmod library and its dependencies.
-  * The dependencies depend on how cholmod has been compiled.
-  * For a cmake based project, you can use our FindCholmod.cmake module to help you in this task.
-  *
-  */
-
-#include "src/CholmodSupport/CholmodSupport.h"
-
-#include "src/Core/util/ReenableStupidWarnings.h"
-
-#endif // EIGEN_CHOLMODSUPPORT_MODULE_H
-