From aaa8130e1f88b65d87551aae60f1748e3fb5681c Mon Sep 17 00:00:00 2001
From: CedricTravelletti <cedrictravelletti@gmail.com>
Date: Thu, 11 Jan 2024 10:50:30 +0100
Subject: [PATCH] Cosmetic fixes.

---
 examples/H2.jl                       | 2 --
 examples/H2_LJ.jl                    | 1 -
 examples/TiAl_EmpiricalPotentials.jl | 4 ++--
 src/atomsbase_interface.jl           | 1 -
 src/optimization.jl                  | 7 +++----
 5 files changed, 5 insertions(+), 10 deletions(-)

diff --git a/examples/H2.jl b/examples/H2.jl
index fde1a51..4e97f41 100644
--- a/examples/H2.jl
+++ b/examples/H2.jl
@@ -1,5 +1,3 @@
-#= Test Geometry Optimization on an aluminium supercell.
-=#
 using Printf
 using LinearAlgebra
 using DFTK
diff --git a/examples/H2_LJ.jl b/examples/H2_LJ.jl
index 30589db..594f05d 100644
--- a/examples/H2_LJ.jl
+++ b/examples/H2_LJ.jl
@@ -10,7 +10,6 @@ using AtomsBase
 using GeometryOptimization
 
 
-
 bounding_box = 10.0u"angstrom" .* [[1, 0, 0.], [0., 1, 0], [0., 0, 1]]
 atoms = [:H => [0, 0, 0.0]u"bohr", :H => [0, 0, 1.9]u"bohr"]
 system = periodic_system(atoms, bounding_box)
diff --git a/examples/TiAl_EmpiricalPotentials.jl b/examples/TiAl_EmpiricalPotentials.jl
index 4fbef2c..0aa3a85 100644
--- a/examples/TiAl_EmpiricalPotentials.jl
+++ b/examples/TiAl_EmpiricalPotentials.jl
@@ -16,11 +16,11 @@ lj = LennardJones(-1.0u"meV", 3.1u"Å",  13, 13, 6.0u"Å")
 # Convert to AbstractSystem, so we have the `particles` attribute.
 particles = map(data) do atom
     Atom(; pairs(atom)...)
-    end
+end
 system = AbstractSystem(data; particles)
 
 solver = OptimizationOptimJL.LBFGS()
 optim_options = (f_tol=1e-8, g_tol=1e-8, iterations=10, show_trace=true)
 
-results = minimize_energy!(system, lj; solver=solver, optim_options...)
+results = minimize_energy!(system, lj; solver, optim_options...)
 println(results)
diff --git a/src/atomsbase_interface.jl b/src/atomsbase_interface.jl
index 4af4859..83b5e25 100644
--- a/src/atomsbase_interface.jl
+++ b/src/atomsbase_interface.jl
@@ -35,7 +35,6 @@ end
 @doc raw"""
 Creates a new system based on ``system`` where the non clamped positions are
 updated to the ones provided (in the order in which they appear in the system).
-
 """
 function update_not_clamped_positions(system, positions::AbstractVector{<:Unitful.Length})
     mask = not_clamped_mask(system)
diff --git a/src/optimization.jl b/src/optimization.jl
index 15ae57d..87f79af 100644
--- a/src/optimization.jl
+++ b/src/optimization.jl
@@ -7,10 +7,9 @@ export minimize_energy!
 
 
 """ 
-    By default we work in cartesian coordinaes.
-    Note that internally, when optimizing the cartesian positions, atomic units 
-    are used.
-
+By default we work in cartesian coordinaes.
+Note that internally, when optimizing the cartesian positions, atomic units 
+are used.
 """
 function Optimization.OptimizationFunction(system, calculator; kwargs...)
     mask = not_clamped_mask(system)  # mask is assumed not to change during optim.