mathajx instead of imgmath in docs

docs/conf.py

@@ -14,30 +14,31 @@
 #
 import os
 import sys
+
 # from recommonmark.parser import CommonMarkParser
-sys.path.insert(0, os.path.abspath('..'))
-sys.path.insert(0, os.path.abspath('../qmla'))
+sys.path.insert(0, os.path.abspath(".."))
+sys.path.insert(0, os.path.abspath("../qmla"))
 
-html_theme = 'sphinx_rtd_theme'
+html_theme = "sphinx_rtd_theme"
 numfig = True
 
 
 # -- Project information -----------------------------------------------------
 
-project = 'Quantum Model Learning Agent'
-copyright = '2021, Brian Flynn, Antonio Andreas Gentile, Raffaele Santagati'
-author = 'Brian Flynn, Antonio Andreas Gentile, Raffaele Santagati'
+project = "Quantum Model Learning Agent"
+copyright = "2021, Brian Flynn, Antonio Andreas Gentile, Raffaele Santagati"
+author = "Brian Flynn, Antonio Andreas Gentile, Raffaele Santagati"
 
 # The short X.Y version
-version = '1.0'
+version = "1.0"
 # The full version, including alpha/beta/rc tags
-release = '1'
+release = "1"
 
 # -- Abstract ---------------------------------------------------
 
 # The LaTeX preamble is placed here so that it can be used both by pngmath
 # and by the LaTeX output plugin.
-with open('abstract.txt', 'r') as f:
+with open("abstract.txt", "r") as f:
     abstract = f.read()
 
 preamble = r"""
@@ -96,7 +97,9 @@
   %\gdef\@thanks{}\gdef\@author{}\gdef\@title{}
 }
 \makeatother
-""".replace("ABSTRACT_HERE", abstract)
+""".replace(
+    "ABSTRACT_HERE", abstract
+)
 
 # source_parsers = {
 #     '.md': CommonMarkParser,
@@ -112,47 +115,48 @@
 # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
 # ones.
 extensions = [
-  'sphinx.ext.autodoc',
-  'sphinx.ext.doctest',
-  'sphinx.ext.imgmath',
-  'sphinx.ext.autosectionlabel',
-  'sphinx.ext.intersphinx',
-  'sphinx.ext.todo',
-  'sphinx.ext.viewcode', 
-  'sphinx.ext.extlinks',
-  # 'recommonmark'
-  # 'sphinxcontrib.bibtex', # must install from pip first # also needs python3.6 :(
-  # 'matplotlib.sphinxext.plot_directive'
+    "sphinx.ext.autodoc",
+    "sphinx.ext.doctest",
+    # 'sphinx.ext.imgmath',
+    "sphinx.ext.mathjax",
+    "sphinx.ext.autosectionlabel",
+    "sphinx.ext.intersphinx",
+    "sphinx.ext.todo",
+    "sphinx.ext.viewcode",
+    "sphinx.ext.extlinks",
+    # 'recommonmark'
+    # 'sphinxcontrib.bibtex', # must install from pip first # also needs python3.6 :(
+    # 'matplotlib.sphinxext.plot_directive'
 ]
 
 autodoc_mock_imports = [
-  'qutip', 
-  'qinfer',
-  'Cython',
-  'fermilib', 
-  'networkx', 
-  'fpdf',
-  'future',
-  'autopep8',
-  'psutil',
-  'projectq',
-  'sklearn',
-  'expm', 
-  'lfig'
+    "qutip",
+    "qinfer",
+    "Cython",
+    "fermilib",
+    "networkx",
+    "fpdf",
+    "future",
+    "autopep8",
+    "psutil",
+    "projectq",
+    "sklearn",
+    "expm",
+    "lfig",
 ]
 autosectionlabel_prefix_document = True
 
 # Add any paths that contain templates here, relative to this directory.
-templates_path = ['_templates']
+templates_path = ["_templates"]
 
 # The suffix(es) of source filenames.
 # You can specify multiple suffix as a list of string:
 #
 # source_suffix = ['.rst', '.md']
-source_suffix = '.rst'
+source_suffix = ".rst"
 
 # The master toctree document.
-master_doc = 'index'
+master_doc = "index"
 
 # The language for content autogenerated by Sphinx. Refer to documentation
 # for a list of supported languages.
@@ -164,18 +168,18 @@
 # List of patterns, relative to source directory, that match files and
 # directories to ignore when looking for source files.
 # This pattern also affects html_static_path and html_extra_path .
-exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store']
+exclude_patterns = ["_build", "Thumbs.db", ".DS_Store"]
 
 # The name of the Pygments (syntax highlighting) style to use.
-pygments_style = 'sphinx'
+pygments_style = "sphinx"
 
 
 # -- Options for HTML output -------------------------------------------------
 
 # The theme to use for HTML and HTML Help pages.  See the documentation for
 # a list of builtin themes.
 #
-html_theme = 'alabaster'
+html_theme = "alabaster"
 
 # Theme options are theme-specific and customize the look and feel of a theme
 # further.  For a list of options available for each theme, see the
@@ -186,7 +190,7 @@
 # Add any paths that contain custom static files (such as style sheets) here,
 # relative to this directory. They are copied after the builtin static files,
 # so a file named "default.css" will overwrite the builtin "default.css".
-html_static_path = ['_static']
+html_static_path = ["_static"]
 
 # Custom sidebar templates, must be a dictionary that maps document names
 # to template names.
@@ -202,7 +206,7 @@
 # -- Options for HTMLHelp output ---------------------------------------------
 
 # Output file base name for HTML help builder.
-htmlhelp_basename = 'QuantumModelLearningAgentdoc'
+htmlhelp_basename = "QuantumModelLearningAgentdoc"
 
 
 # -- Options for LaTeX output ------------------------------------------------
@@ -211,15 +215,12 @@
     # The paper size ('letterpaper' or 'a4paper').
     #
     # 'papersize': 'letterpaper',
-
     # The font size ('10pt', '11pt' or '12pt').
     #
     # 'pointsize': '10pt',
-
     # Additional stuff for the LaTeX preamble.
     #
     # 'preamble': '',
-
     # Latex figure (float) alignment
     #
     # 'figure_align': 'htbp',
@@ -229,25 +230,33 @@
 # (source start file, target name, title,
 #  author, documentclass [howto, manual, or own class]).
 latex_documents = [
-    (master_doc, 'QuantumModelLearningAgent.tex', 'Quantum Model Learning Agent Documentation',
-     'Brian Flynn, Antonio Andreas Gentile, Raffaele Santagati', 'manual'),
+    (
+        master_doc,
+        "QuantumModelLearningAgent.tex",
+        "Quantum Model Learning Agent Documentation",
+        "Brian Flynn, Antonio Andreas Gentile, Raffaele Santagati",
+        "manual",
+    ),
 ]
 
 # Additional stuff for the LaTeX preamble.
 latex_preamble = preamble
 # In Sphinx 1.5, this now appears as latex_elements, so we pack the
 # preamble that way, too.
-latex_elements = {
-    'preamble': preamble
-}
+latex_elements = {"preamble": preamble}
 
 # -- Options for manual page output ------------------------------------------
 
 # One entry per manual page. List of tuples
 # (source start file, name, description, authors, manual section).
 man_pages = [
-    (master_doc, 'quantummodellearningagent', 'Quantum Model Learning Agent Documentation',
-     [author], 1)
+    (
+        master_doc,
+        "quantummodellearningagent",
+        "Quantum Model Learning Agent Documentation",
+        [author],
+        1,
+    )
 ]
 
 
@@ -257,16 +266,22 @@
 # (source start file, target name, title, author,
 #  dir menu entry, description, category)
 texinfo_documents = [
-    (master_doc, 'QuantumModelLearningAgent', 'Quantum Model Learning Agent Documentation',
-     author, 'QuantumModelLearningAgent', 'Machine learning for identifying models of quantum systems.',
-     'Miscellaneous'),
+    (
+        master_doc,
+        "QuantumModelLearningAgent",
+        "Quantum Model Learning Agent Documentation",
+        author,
+        "QuantumModelLearningAgent",
+        "Machine learning for identifying models of quantum systems.",
+        "Miscellaneous",
+    ),
 ]
 
 ## EXTLINKS CONFIGURATION ######################################################
 
 # allow e.g. arxiv links
 extlinks = {
-    'arxiv': ('https://arxiv.org/abs/2002.06169', 'arXiv:'),
+    "arxiv": ("https://arxiv.org/abs/2002.06169", "arXiv:"),
     # 'doi': ('https://dx.doi.org/%s', 'doi:'),
     # 'hdl': ('https://hdl.handle.net/%s', 'hdl:')
 }

qmla/exploration_strategies/genetic_algorithms/heisenberg_genetic.py

@@ -297,4 +297,4 @@ def __init__(
         }
 
         self.num_processes_to_parallelise_over = 16
-        self.timing_insurance_factor = 10
+        self.timing_insurance_factor = 6