BeadWeaver 0.0.1__tar.gz

beadweaver-0.0.1/LICENSE

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+Copyright (c) 2026 The Python Packaging Authority
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

beadweaver-0.0.1/PKG-INFO

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+Metadata-Version: 2.4
+Name: BeadWeaver
+Version: 0.0.1
+Summary: Bead weaver is a package for manipulating .itp files
+Author: Alejandro Daignino
+Author-email: Jahmal Ennis <jahmal.ennis@gmail.com>
+License-Expression: MIT
+Project-URL: Issues, https://github.com/BranniganLab/BeadWeaver.git
+Classifier: Programming Language :: Python :: 3
+Classifier: Operating System :: OS Independent
+Requires-Python: >=3
+Description-Content-Type: text/markdown
+License-File: LICENSE
+Requires-Dist: numpy
+Requires-Dist: networkx
+Requires-Dist: mdanalysis
+Requires-Dist: matplotlib>=3.9
+Requires-Dist: pyparsing
+Dynamic: license-file
+
+# BeadWeaver
+Beadweaver is a software for manipulating itps of coarse-grained biological molecules.
+
+## Quick start
+### Create a virtual environment
+`python -m venv beadweaver`
+
+`source beadweaver/bin/activate`
+
+### Install beadweaver package
+`cd BeadWeaver`
+
+`pip install .` (This will not be editable)
+
+or 
+
+`pip install -e .` (This will be editable and will make adjustments anytime the github is changed)
+
+### Activate Beadweaver GUI
+`BWGUI`
+
+![Bead weaver GUI](./docs/_build/html/_images/BWGUI2.png)
+
+## GUI Button Functions
+
+`Delete Bond`: Click on two beads, then click the `delete button` to remove the bond between molecules.
+
+`Add Bond`: Click on two beads, then click the `add bond` button to remove the bond between molecules.
+
+`Library`: The library is a drop-down menu of molecules that Beadweaver can access. You can select the molecule of interest, and that molecule will be loaded.
+
+`Select`: First, select the beads from the current structure by clicking them. Then click the select button. A menu will appear; type in the name of the new structure. That new structure can be used in `New Molecule` and will be added to the `Library`.
+
+`New Molecule`: Allows the user to insert a new molecule into the GUI using a string format. First, click `Delete Molecule`, then click `New Molecule`. Enter the name of the new molecule and click OK. A second command box will appear; enter the new molecule string.
+
+**Format**: `bond#<molecule name>bond#-bond#<molecule name>bond#` or `bond#(bond molecule#(bond#<molecule name>bond#-bond#<letters>bond#`
+
+**Example**: `0<KDO>1-2<KDO>0` or `0<KDO>1-2<KDO>1-1(1(3<KDO>0`
+
+`Labels`: toggles on and off all labels
+
+![Bead weaver GUI](./docs/_build/html/_images/BWGUI1.png)

beadweaver-0.0.1/README.md

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+# BeadWeaver
+Beadweaver is a software for manipulating itps of coarse-grained biological molecules.
+
+## Quick start
+### Create a virtual environment
+`python -m venv beadweaver`
+
+`source beadweaver/bin/activate`
+
+### Install beadweaver package
+`cd BeadWeaver`
+
+`pip install .` (This will not be editable)
+
+or 
+
+`pip install -e .` (This will be editable and will make adjustments anytime the github is changed)
+
+### Activate Beadweaver GUI
+`BWGUI`
+
+![Bead weaver GUI](./docs/_build/html/_images/BWGUI2.png)
+
+## GUI Button Functions
+
+`Delete Bond`: Click on two beads, then click the `delete button` to remove the bond between molecules.
+
+`Add Bond`: Click on two beads, then click the `add bond` button to remove the bond between molecules.
+
+`Library`: The library is a drop-down menu of molecules that Beadweaver can access. You can select the molecule of interest, and that molecule will be loaded.
+
+`Select`: First, select the beads from the current structure by clicking them. Then click the select button. A menu will appear; type in the name of the new structure. That new structure can be used in `New Molecule` and will be added to the `Library`.
+
+`New Molecule`: Allows the user to insert a new molecule into the GUI using a string format. First, click `Delete Molecule`, then click `New Molecule`. Enter the name of the new molecule and click OK. A second command box will appear; enter the new molecule string.
+
+**Format**: `bond#<molecule name>bond#-bond#<molecule name>bond#` or `bond#(bond molecule#(bond#<molecule name>bond#-bond#<letters>bond#`
+
+**Example**: `0<KDO>1-2<KDO>0` or `0<KDO>1-2<KDO>1-1(1(3<KDO>0`
+
+`Labels`: toggles on and off all labels
+
+![Bead weaver GUI](./docs/_build/html/_images/BWGUI1.png)

beadweaver-0.0.1/README.rst

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+.. README.rst
+
+**********
+BeadWeaver
+**********
+
+.. image:: _build/html/_images/BWlogo.png
+   :width: 600px
+
+

beadweaver-0.0.1/pyproject.toml

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+[build-system]
+requires = ["setuptools >= 77.0.3"]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "BeadWeaver"
+version = "0.0.1"
+requires-python = ">=3"
+dependencies=[
+	"numpy",
+	"networkx",
+	"mdanalysis",
+	"matplotlib>=3.9",
+        "pyparsing"
+]
+authors = [
+  { name="Alejandro Daignino" },
+  { name="Jahmal Ennis", email="jahmal.ennis@gmail.com" },
+]
+description = "Bead weaver is a package for manipulating .itp files"
+readme = "README.md"
+classifiers = [
+    "Programming Language :: Python :: 3",
+    "Operating System :: OS Independent",
+]
+license = "MIT"
+license-files = ["LICEN[CS]E*"]
+
+[project.scripts]
+BWGUI = "beadweaver.bwGUI:launch_GUI"
+
+[project.urls]
+Issues = "https://github.com/BranniganLab/BeadWeaver.git"

beadweaver-0.0.1/setup.cfg

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+[egg_info]
+tag_build = 
+tag_date = 0
+

beadweaver-0.0.1/src/BeadWeaver.egg-info/PKG-INFO

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+Metadata-Version: 2.4
+Name: BeadWeaver
+Version: 0.0.1
+Summary: Bead weaver is a package for manipulating .itp files
+Author: Alejandro Daignino
+Author-email: Jahmal Ennis <jahmal.ennis@gmail.com>
+License-Expression: MIT
+Project-URL: Issues, https://github.com/BranniganLab/BeadWeaver.git
+Classifier: Programming Language :: Python :: 3
+Classifier: Operating System :: OS Independent
+Requires-Python: >=3
+Description-Content-Type: text/markdown
+License-File: LICENSE
+Requires-Dist: numpy
+Requires-Dist: networkx
+Requires-Dist: mdanalysis
+Requires-Dist: matplotlib>=3.9
+Requires-Dist: pyparsing
+Dynamic: license-file
+
+# BeadWeaver
+Beadweaver is a software for manipulating itps of coarse-grained biological molecules.
+
+## Quick start
+### Create a virtual environment
+`python -m venv beadweaver`
+
+`source beadweaver/bin/activate`
+
+### Install beadweaver package
+`cd BeadWeaver`
+
+`pip install .` (This will not be editable)
+
+or 
+
+`pip install -e .` (This will be editable and will make adjustments anytime the github is changed)
+
+### Activate Beadweaver GUI
+`BWGUI`
+
+![Bead weaver GUI](./docs/_build/html/_images/BWGUI2.png)
+
+## GUI Button Functions
+
+`Delete Bond`: Click on two beads, then click the `delete button` to remove the bond between molecules.
+
+`Add Bond`: Click on two beads, then click the `add bond` button to remove the bond between molecules.
+
+`Library`: The library is a drop-down menu of molecules that Beadweaver can access. You can select the molecule of interest, and that molecule will be loaded.
+
+`Select`: First, select the beads from the current structure by clicking them. Then click the select button. A menu will appear; type in the name of the new structure. That new structure can be used in `New Molecule` and will be added to the `Library`.
+
+`New Molecule`: Allows the user to insert a new molecule into the GUI using a string format. First, click `Delete Molecule`, then click `New Molecule`. Enter the name of the new molecule and click OK. A second command box will appear; enter the new molecule string.
+
+**Format**: `bond#<molecule name>bond#-bond#<molecule name>bond#` or `bond#(bond molecule#(bond#<molecule name>bond#-bond#<letters>bond#`
+
+**Example**: `0<KDO>1-2<KDO>0` or `0<KDO>1-2<KDO>1-1(1(3<KDO>0`
+
+`Labels`: toggles on and off all labels
+
+![Bead weaver GUI](./docs/_build/html/_images/BWGUI1.png)

beadweaver-0.0.1/src/BeadWeaver.egg-info/SOURCES.txt

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+LICENSE
+README.md
+README.rst
+pyproject.toml
+src/BeadWeaver.egg-info/PKG-INFO
+src/BeadWeaver.egg-info/SOURCES.txt
+src/BeadWeaver.egg-info/dependency_links.txt
+src/BeadWeaver.egg-info/entry_points.txt
+src/BeadWeaver.egg-info/requires.txt
+src/BeadWeaver.egg-info/top_level.txt
+src/beadweaver/BeadWeaver.py
+src/beadweaver/__init__.py
+src/beadweaver/bwGUI.py
+src/beadweaver/bw_parser.py
+src/beadweaver/itp_parser.py
+src/beadweaver/itpreader.py
+src/beadweaver/test.py

beadweaver-0.0.1/src/BeadWeaver.egg-info/dependency_links.txt

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+

beadweaver-0.0.1/src/BeadWeaver.egg-info/entry_points.txt

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+[console_scripts]
+BWGUI = beadweaver.bwGUI:launch_GUI

beadweaver-0.0.1/src/BeadWeaver.egg-info/requires.txt

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+numpy
+networkx
+mdanalysis
+matplotlib>=3.9
+pyparsing

beadweaver-0.0.1/src/BeadWeaver.egg-info/top_level.txt

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+beadweaver