New: setup.py for setuptools

New: credentials and some description
Move: all modules was merged to one global module
Fix: useless test

anisotropy.py

@@ -0,0 +1,9 @@
+#!/usr/bin/env python
+# -*- coding: utf-8 -*-
+# This file is part of anisotropy.
+# License: GNU GPL version 3, see the file "LICENSE" for details.
+
+import sys
+import anisotropy
+
+sys.exit(anisotropy.main())

anisotropy/__init__.py

@@ -1,13 +1,13 @@
-#!/usr/bin/env python
 # -*- coding: utf-8 -*-
-"""asd"""
+# This file is part of anisotropy.
-from anisotropy.core import (
+# License: GNU GPL version 3, see the file "LICENSE" for details.
-    Anisotropy,
-    logger
-)
 
-from anisotropy.simple import Simple
+"""anisotropy
-from anisotropy.bodyCentered import BodyCentered
+"""
-from anisotropy.faceCentered import FaceCentered
 
+__license__ = "GPL3"
+__version__ = "1.1.0"
+__author__ = __maintainer = "George Kusayko"
+__email__ = "gkusayko@gmail.com"
 
+from anisotropy.core.main import main

anisotropy/config/default.toml

@@ -74,7 +74,7 @@ faceCentered = true
     fuseEdges = true
     checkChartBoundary = false
 
-    [flow]
+    [structures.flow]
     scale = [ 1e-5, 1e-5, 1e-5 ]
 
     constant.nu = 1e-6
@@ -159,7 +159,7 @@ faceCentered = true
     fuseEdges = true
     checkChartBoundary = false
 
-    [flow]
+    [structures.flow]
     scale = [ 1e-5, 1e-5, 1e-5 ]
 
     constant.nu = 1e-6
@@ -244,7 +244,7 @@ faceCentered = true
     fuseEdges = true
     checkChartBoundary = false
 
-    [flow]
+    [structures.flow]
     scale = [ 1e-5, 1e-5, 1e-5 ]
 
     constant.nu = 1e-6

anisotropy/core/cli.py

@@ -5,7 +5,7 @@ def version():
     msg = "Missed package anisotropy"
 
     try:
-        from anisotropy import Anisotropy
+        from anisotropy.core.main import Anisotropy
         msg = Anisotropy.version()
 
     except ImportError:
@@ -22,7 +22,7 @@ def anisotropy():
 @click.option("-s", "--stage", "stage", type = click.Choice(["all", "mesh", "flow"]), default = "all")
 @click.option("-p", "--param", "params", metavar = "key=value", multiple = True)
 def compute(stage, params):
-    from anisotropy import Anisotropy
+    from anisotropy.core.main import Anisotropy
 
     model = Anisotropy()
     model.setupDB()
@@ -69,7 +69,7 @@ def _compute_mesh(root, name, direction, theta):
         os.path.join(root, "env/lib/python3.9/site-packages")
     ])
 
-    from anisotropy import Anisotropy
+    from anisotropy.core.main import Anisotropy
 
     ###
     model = Anisotropy()

anisotropy/core/main.py

@@ -4,43 +4,11 @@ from datetime import timedelta, datetime
 import shutil
 import logging
 
-__version__ = "1.1"
-###
-#   Shell args
-##
-#configPath = "conf/config.toml"
-#mode = "safe"
-
-#for n, arg in enumerate(sys.argv):
-#    if arg == "-c" or arg == "--config":
-#        configPath = sys.args[n + 1]
-
-#    if arg == "-s" or arg == "--safe":
-#        mode = "safe"
-
-#    elif arg == "-a" or arg == "--all":
-#        mode = "all"
-
-###
-#   Load configuration and tools
-##
-#CONFIG = os.path.join(ROOT, configPath)
-#config = struct(toml.load(CONFIG))
-
-#LOG = os.path.join(ROOT, "logs")
-#if not os.path.exists(LOG):
-#    os.makedirs(LOG)
-
-#BUILD = os.path.join(ROOT, "build")
-#if not os.path.exists(BUILD):
-#    os.makedirs(BUILD)
-
-##################################################################################
-import os
 import toml
 from copy import deepcopy
-from anisotropy.models import db, JOIN, Structure, Mesh, SubMesh, MeshResult
+
-from anisotropy.utils import struct, deepupdate
+from anisotropy.core.models import db, Structure, Mesh, SubMesh, MeshResult
+from anisotropy.core.utils import struct, deepupdate
 
 
 ###
@@ -50,7 +18,7 @@ env = { "ROOT": os.path.abspath(".") }
 env.update(dict(
     BUILD = os.path.join(env["ROOT"], "build"),
     LOG = os.path.join(env["ROOT"], "logs"),
-    DEFAULT_CONFIG = os.path.join(env["ROOT"], "anisotropy/default.toml"),
+    DEFAULT_CONFIG = os.path.join(env["ROOT"], "anisotropy/config/default.toml"),
     CONFIG = os.path.join(env["ROOT"], "conf/config.toml")
 ))
 env["db_path"] = env["BUILD"]
@@ -101,10 +69,10 @@ class CustomFormatter(logging.Formatter):
         return formatter.format(record)
 
 logger = logging.getLogger(logger_env.get("name", "anisotropy"))
-logger.setLevel(logging.DEBUG)
+logger.setLevel(logging.INFO)
 
 sh = logging.StreamHandler()
-sh.setLevel(logging.DEBUG)
+sh.setLevel(logging.INFO)
 sh.setFormatter(CustomFormatter())
 
 fh = logging.FileHandler(os.path.join(env["LOG"], logger_env.get("name", "anisotropy")))
@@ -127,12 +95,17 @@ def timer(func):
 
     return inner
 
-import salomepl
+from anisotropy import salomepl
-import openfoam
+from anisotropy import openfoam
 from math import sqrt
+from peewee import JOIN
 
 class Anisotropy(object):
+    """Ultimate class that organize whole working process"""
+
     def __init__(self):
+        """Constructor method"""
+
         self.env = env
         self.db = None
         self.params = []
@@ -140,6 +113,11 @@ class Anisotropy(object):
 
     @staticmethod
     def version():
+        """Returns versions of all used main programs
+
+        :return: Versions joined by next line symbol
+        :rtype: str
+        """
         versions = {
             "anisotropy": __version__,
             "Python": sys.version.split(" ")[0],
@@ -157,7 +135,13 @@ class Anisotropy(object):
         return "\n".join([ f"{ k }: { v }" for k, v in versions.items() ])
 
     
-    def loadFromScratch(self):
+    def loadFromScratch(self) -> list:
+        """Loads parameters from configuration file and expands special values
+
+        :return: List of dicts with parameters
+        :rtype: list
+        """
+
         if not os.path.exists(self.env["DEFAULT_CONFIG"]):
             logger.error("Missed default configuration file")
             return
@@ -201,13 +185,11 @@ class Anisotropy(object):
                     paramsAll.append(entryNew)
 
         return paramsAll
-        self.setupDB()
-        
-        for entry in paramsAll:
-            self.updateDB(entry)
 
     
     def evalParams(self):
+        """Evals specific geometry(structure) parameters"""
+
         structure = self.params.get("structure")
 
         if not structure:
@@ -261,7 +243,12 @@ class Anisotropy(object):
             fillets = fillets 
         )
 
-    def getCasePath(self):
+    def getCasePath(self) -> str:
+        """Constructs case path from main control parameters
+        
+        :return: Absolute path to case
+        :rtype: str
+        """
         structure = self.params.get("structure")
 
         if not structure:
@@ -629,7 +616,7 @@ class Anisotropy(object):
 
         for d in foamCase:
             shutil.copytree(
-                os.path.join(ROOT, "openfoam/template", d), 
+                os.path.join(ROOT, "anisotropy/openfoam/template", d), 
                 os.path.join(case, d)
             )
         

anisotropy/core/models.py

@@ -1,4 +1,11 @@
-from peewee import *
+from peewee import (
+    SqliteDatabase, 
+    Model, Field, 
+    AutoField, ForeignKeyField, 
+    TextField, FloatField, 
+    IntegerField, BooleanField, 
+    TimeField
+)
 
 class ListField(Field):
     field_type = "list"
@@ -30,7 +37,7 @@ class BaseModel(Model):
 
 
 class Structure(BaseModel):
-    structure_id = PrimaryKeyField()
+    structure_id = AutoField()
 
     type = TextField()
     direction = ListField()
@@ -46,7 +53,7 @@ class Structure(BaseModel):
 
 
 class Mesh(BaseModel):
-    mesh_id = PrimaryKeyField()
+    mesh_id = AutoField()
     structure_id = ForeignKeyField(Structure, backref = "meshes")
 
     maxSize = FloatField(null = True) 
@@ -78,7 +85,7 @@ class Mesh(BaseModel):
 
 
 class SubMesh(BaseModel):
-    submesh_id = PrimaryKeyField()
+    submesh_id = AutoField()
     mesh_id = ForeignKeyField(Mesh, backref = "submeshes")
     name = TextField()
 
@@ -102,7 +109,7 @@ class SubMesh(BaseModel):
 
 
 class MeshResult(BaseModel):
-    meshresult_id = PrimaryKeyField()
+    meshresult_id = AutoField()
     mesh_id = ForeignKeyField(Mesh, backref = "meshresults")
     
     surfaceArea = FloatField(null = True)

anisotropy/salomepl/__init__.py

@@ -0,0 +1,4 @@
+#!/usr/bin/env python
+# -*- coding: utf-8 -*-
+
+

postProcessing/showFailed

@@ -1,24 +0,0 @@
-#!/usr/bin/env bash
-DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )/.."
-cd ${DIR}
-
-source $OPENFOAM
-
-getcase()
-{
-    for _case in $( find $1 -type f -name $2 ); do
-        if [ "$( cat $_case | grep "$3" )" ]; then
-            echo $_case
-        fi
-    done
-}
-
-echo -e "\nFailed mesh:"
-getcase "$DIR/build" "task.toml" "mesh = false"
-
-echo -e "\nFailed flow:"
-getcase "$DIR/build" "task.toml" "flow = false"
-
-endTime="$( foamDictionary "${DIR}/openfoam/template/system/controlDict" -entry endTime -value )"
-echo -e "\nComputation exceed 'endTime = $endTime':"
-getcase "$DIR/build" "simpleFoam.log" "Time = $endTime"

postProcessing/utils.py

@@ -1,28 +0,0 @@
-from paraview.simple import *
-
-def plotMagnitude():
-
-    rv = CreateRenderView()
-    rv.ViewSize = [1920, 1080]
-    rv.CameraPosition = [1e-05, 2e-05, 1e-05]
-    rv.CameraFocalPoint = [1e-05, 2e-05, 1e-05]
-
-
-    layout1 = CreateLayout(name='Layout #1')
-    layout1.AssignView(0, rv)
-
-    SetActiveView(rv)
-
-    foam = OpenFOAMReader(FileName = "simple.foam")
-    foam.CaseType = "Decomposed Case"
-    foam.MeshRegions = ["internalMesh"]
-    foam.CellArrays = ["U", "p"]
-
-    SetActiveSource(foam)
-    display = Show(foam, rv, "UnstructuredGridRepresentation")
-    r = Render()
-    
-    SaveScreenshot("test.png", r)
-
-if __name__ == "__main__":
-    plotMagnitude()

salomepl/__init__.py

@@ -1,8 +0,0 @@
-#!/usr/bin/env python
-# -*- coding: utf-8 -*-
-
-from salomepl import (
-    geometry,
-    mesh,
-    utils
-)

setup.py

@@ -0,0 +1,44 @@
+#!/usr/bin/env python
+# -*- coding: utf-8 -*-
+# This file is part of anisotropy.
+# License: GNU GPL version 3, see the file "LICENSE" for details.
+
+from setuptools import setup
+
+import anisotropy
+
+def main():
+    setup(
+        name = "anisotropy",
+        description = "Anisotropy",
+        long_description = anisotropy.__doc__,
+        version = anisotropy.__version__,
+        author = anisotropy.__author__,
+        author_email = anisotropy.__email__,
+        license = anisotropy.__license__,
+        url = "https://github.com/L-Nafaryus/anisotropy",
+        keywords = "anisotropy console",
+        classifiers = [
+            "Environment :: Console",
+            "Operating System :: POSIX",
+            "Operating System :: Unix",
+            "Programming Language :: Python :: 3.9"
+        ],
+        package_data = {
+            "anisotropy": [
+                "config/default.toml"
+            ]
+        },
+        packages = (
+            "anisotropy",
+            "anisotropy.config",
+            "anisotropy.core",
+            "anisotropy.openfoam",
+            "anisotropy.salomepl",
+            "anisotropy.samples"
+        )
+    )
+
+
+if __name__ == "__main__":
+    main()

tests/test_anisotropy.py

@@ -5,8 +5,8 @@ unittest.TestLoader.sortTestMethodsUsing = None
 
 class TestAnisotropy(unittest.TestCase):
     def setUp(self):
-        import anisotropy
+        from anisotropy.core.main import Anisotropy
-        self.model = anisotropy.Anisotropy()
+        self.model = Anisotropy()
 
     def test_01_create_db(self):
         self.model.setupDB()
@@ -14,11 +14,15 @@ class TestAnisotropy(unittest.TestCase):
         
         self.assertTrue(os.path.exists(path))
 
-    def test_02_load_scratch(self):
+    def test_02_load_from_scratch(self):
         passed = True
 
         try:
-            self.model.loadScratch()
+            paramsAll = self.model.loadFromScratch()
+            self.model.setupDB()
+        
+            for entry in paramsAll:
+                self.model.updateDB(entry)
         
         except Exception as e:
             passed = False
@@ -31,8 +35,6 @@ class TestAnisotropy(unittest.TestCase):
 
         self.assertEqual(self.model.params["structure"]["type"], "simple")
         
-    def test_04_updateDB(self):
-        self.model.updateDB()
 
 if __name__ == "__main__":
     unittest.main()