#!/usr/bin/env python
# coding: utf-8

# # Membranes in 1D : Data Structure
# 
# ## Data Structure and Visualization of Membranes in 1D
# 
# No simulations done here; for diffusion and transport across membranes, please see `membranes_2` and other experiments

# ### TAGS :  "membranes 1D", "basic", "quick-start"

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LAST_REVISED = "June 4, 2025"
LIFE123_VERSION = "1.0.0rc6"        # Library version this experiment is based on


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#import set_path                    # Using MyBinder?  Uncomment this before running the next cell!


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#import sys, os
#os.getcwd()
#sys.path.append("C:/some_path/my_env_or_install")   # CHANGE to the folder containing your venv or libraries installation!
# NOTE: If any of the imports below can't find a module, uncomment the lines above, or try:  import set_path

from life123 import BioSim1D, ChemData, check_version


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check_version(LIFE123_VERSION)


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# ## Prepare the initial system
# with a single non-zero bin concentration of the single chemical `A`, near the left edge of the system

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chem_data = ChemData(names=["A", "B"], plot_colors=["turquoise", "green"])

bio = BioSim1D(n_bins=21, chem_data=chem_data)


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bio.inject_gradient(chem_label="A", conc_left = 0., conc_right = 100.)

bio.inject_sine_conc(chem_label="B", number_cycles=2, amplitude=5., bias=10., phase=0)

bio.describe_state()


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bio.system_snapshot()


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bio.visualize_system()   # Line curve view


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bio.system_heatmaps(text_format=".0f")


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# # Add Membranes

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bio.membranes().set_membranes(membranes=[ (0, 5) ])


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bio.membranes().membrane_list


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bio.system_heatmaps(text_format=".0f")


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bio.membranes().set_membranes(membranes=[ (0, 5), (10, 11), (16,21) ])    # Overwrite previous membranes


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bio.system_heatmaps(text_format=".0f")


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