.github/FUNDING.yml

+github: paulmueller
+liberapay: paulmueller

CHANGELOG

+1.1.7
+ - docs: add sponsor links to contribute section
+ - docs: add gallery with all images in docs/gallery
 1.1.6
  - fix: improve support for Confocor FCS file format
    (see discussion in #37)

debian/changelog

+pycorrfit (1.1.7+dfsg-1) unstable; urgency=medium
+
+  * Team upload.
+  * New upstream version
+  * Standards-Version: 4.4.1
+  * Do not parse d/changelog
+  * Drop ancient X-Python-Version field
+  * Use secure URI in Homepage field.
+
+ -- Steffen Moeller <moeller@debian.org>  Wed, 04 Dec 2019 14:19:32 +0100
+
 pycorrfit (1.1.6+dfsg-4) unstable; urgency=medium
 
   * Fix typo in d/rules, skip tests only on s390x

debian/control

@@ -27,11 +27,10 @@ Build-Depends: cython3,
                texlive-latex-extra,
                texlive-latex-recommended,
                texlive-science
-Standards-Version: 4.4.0
+Standards-Version: 4.4.1
 Vcs-Browser: https://salsa.debian.org/med-team/pycorrfit
 Vcs-Git: https://salsa.debian.org/med-team/pycorrfit.git
-Homepage: http://fcs-analysis.github.io/PyCorrFit/
-X-Python3-Version: >= 3.6
+Homepage: https://fcs-analysis.github.io/PyCorrFit/
 
 Package: pycorrfit
 Architecture: any

debian/rules

@@ -15,6 +15,7 @@ endif
 
 export PYBUILD_INSTALL_ARGS_python3=--install-lib=/usr/lib/${PYBUILD_NAME}
 # see https://wiki.debian.org/ReproducibleBuilds/TimestampsInPDFGeneratedByLaTeX
+include /usr/share/dpkg/default.mk
 DEB_DATE_RFC_2822 := $(shell dpkg-parsechangelog -S date)
 DEB_DATE_RFC_3339 := $(shell date -u "--rfc-3339=seconds" -d "$(DEB_DATE_RFC_2822)")
 
@@ -33,6 +34,13 @@ FAKETIME = faketime -f "$(DEB_DATE_RFC_3339)"
 override_dh_auto_clean:
 	touch doc/PyCorrFit_doc.pdf
 	dh_auto_clean
+	rm -f PyCorrFit_doc.pdf
+	rm -f doc/PyCorrFit_doc.aux doc/PyCorrFit_doc.bbl doc/PyCorrFit_doc.blg doc/PyCorrFit_doc.log doc/PyCorrFit_doc.out doc/PyCorrFit_doc.pdf doc/PyCorrFit_doc.synctex.gz doc/PyCorrFit_doc.toc doc/PyCorrFit_doc_content.aux
+	rm -rf pycorrfit.egg-info/
+	rm -f pycorrfit/_version_save.py
+	rm -f pycorrfit/readfiles/read_pt3_scripts/fib4.c
+	rm -rf .pytest_cache
+
 
 override_dh_auto_build:
 	cd $(DOCDIR) && \

docs/conf.py

@@ -65,6 +65,7 @@ extensions = ['sphinx.ext.autodoc',
               'sphinx.ext.viewcode',
               'sphinx.ext.napoleon',
               'github_changelog',
+              'simple_gallery',
               ]
 
 # Add any paths that contain templates here, relative to this directory.
@@ -119,7 +120,7 @@ todo_include_todos = False
 # The theme to use for HTML and HTML Help pages.  See the documentation for
 # a list of builtin themes.
 #
-html_theme = 'default'
+html_theme = 'sphinx_rtd_theme'
 
 # 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

docs/extensions/simple_gallery.py

+"""Show all images in the "gallery" folder
+
+Usage:
+
+   .. simple_gallery::
+      :dir: gallery
+
+where "gallery" is relative to the folder containing conf.py.
+
+Changelog:
+0.1 (2019-10-24)
+ - initial release
+"""
+import pathlib
+
+from docutils.statemachine import ViewList
+from docutils.parsers.rst import Directive, directives
+from sphinx.util.nodes import nested_parse_with_titles
+from docutils import nodes
+
+
+class SimpleGalleryDirective(Directive):
+    required_arguments = 0
+    optional_arguments = 1
+    final_argument_whitespace = True
+
+    option_spec = {
+        'dir': directives.unchanged,
+    }
+
+    def get_files(self):
+        """This will return a list of files"""
+        root = pathlib.Path(__file__).parent.parent
+        gpath = root / self.options["dir"]
+        files = []
+        for ff in gpath.glob("*"):
+            if ff.suffix in [".png", "*.jpg"]:
+                files.append(ff.relative_to(root))
+        return files
+
+    def run(self):
+        rst = []
+        files = self.get_files()
+
+        for ff in files:
+            rst.append(".. image:: {}".format(ff))
+            rst.append("    :target: _images/{}".format(ff.name))
+            rst.append("    :scale: 25%")
+            rst.append("    :align: left")
+            rst.append("")
+
+        vl = ViewList(rst, "fakefile.rst")
+        # Create a node.
+        node = nodes.section()
+        node.document = self.state.document
+        # Parse the rst.
+        nested_parse_with_titles(self.state, vl, node)
+        return node.children
+
+
+def setup(app):
+    app.add_directive('simple_gallery', SimpleGalleryDirective)
+    return {'version': '0.1'}   # identifies the version of our extension

docs/requirements.txt

 mock
 sphinx>=1.6.4
 sphinxcontrib.bibtex
+sphinx_rtd_theme

docs/sec_contribute.rst

@@ -26,7 +26,12 @@ PyCorrFit) in numerous ways:
    familiar with reStrucuredText or LaTeX, you might be able to help
    out with the online documentation.
 
-5. Please cite: Müller et al. Bioinformatics 30(17): 2532–2533, 2014
+5. Please cite: Müller et al. Bioinformatics 30(17): 2532–2533, 2014,
+   `DOI:10.1093/bioinformatics/btu328
+   <https://dx.doi.org/10.1093/bioinformatics/btu328>`_
+
+6. Sponsor me on `GitHub <https://github.com/sponsors/paulmueller>`_
+   or donate via `Liberapay <https://liberapay.com/paulmueller>`_.
 
 If you are planning to contribute to PyCorrFit, please contact me via
 the PyCorrFit issue page on GitHub such that we may coordinate a pull

docs/sec_gallery.rst

@@ -2,6 +2,5 @@
 Gallery
 =======
 
-TODO:
- - Automatically insert all images from the gallery folder.
- - Add new screenshots.
\ No newline at end of file
+.. simple_gallery::
+   :dir: gallery

pycorrfit/gui/contribute.py

+import wx
+from wx.lib import sized_controls
+import wx.lib.agw.hyperlink as hl
+
+
+class ContributeDialog(sized_controls.SizedDialog):
+
+    def __init__(self, *args, **kwargs):
+        super(ContributeDialog, self).__init__(title="Contribute to PyCorrFit",
+                                               *args, **kwargs)
+        pane = self.GetContentsPane()
+
+        pane_btns = sized_controls.SizedPanel(pane)
+        pane_btns.SetSizerType('vertical')
+        pane_btns.SetSizerProps(align="center")
+
+        wx.StaticText(pane_btns, label=contribute_text)
+        wx.StaticText(pane_btns, label="\nLinks:")
+        for ii, link in enumerate(contribute_links):
+            hl.HyperLinkCtrl(pane_btns,
+                             -1,
+                             "[{}]  {}".format(ii+1, link),
+                             URL=link)
+        wx.StaticText(pane_btns, label="\n")
+
+        button_ok = wx.Button(pane_btns, label='OK')
+        button_ok.Bind(wx.EVT_BUTTON, self.on_button)
+        button_ok.SetFocus()
+        button_ok.SetSizerProps(expand=True)
+
+        self.Fit()
+
+    def on_button(self, event):
+        if self.IsModal():
+            self.EndModal(event.EventObject.Id)
+        else:
+            self.Close()
+
+
+contribute_text = """
+PyCorrFit has no funding and a vanishingly small developer community.
+My personal objective is to keep PyCorrFit operational on Linux and
+Windows which is currently limited by the free time I have available.
+
+An active community is very important for an open source project such
+as PyCorrFit. You can help this community grow (and thus help improve
+PyCorrFit) in numerous ways:
+
+1. \tTell your colleagues and peers about PyCorrFit. One of them
+   \tmight be able to contribute to the project.
+
+2. \tIf you need a new feature in PyCorrFit, publicly announce a
+   \tbounty for its implementation.
+
+3. \tIf your research heavily relies on FCS, please consider
+   \tdiverting some of your resources to the development
+   \tof PyCorrFit.
+
+4. \tYou don't have to be a Python programmer to contribute. If
+   \tyou are familiar with reStrucuredText or LaTeX, you might
+   \tbe able to help out with the online documentation.
+
+5. \tPlease cite: Müller et al. Bioinformatics 30(17): 2532–2533,
+   \t2014 [1].
+
+6. \tSponsor me on GitHub [2] or donate via Liberapay [3].
+
+If you are planning to contribute to PyCorrFit, please contact me via
+the PyCorrFit issue page on GitHub such that we may coordinate a pull
+request.
+
+Thank you!
+Paul Müller (October 2019)
+"""
+
+
+contribute_links = [
+    "https://dx.doi.org/10.1093/bioinformatics/btu328",
+    "https://github.com/sponsors/paulmueller",
+    "https://liberapay.com/paulmueller",
+    ]

pycorrfit/gui/doc.py

@@ -103,7 +103,8 @@ def SoftwareUsed():
            "\n - wxPython "+wx.__version__
     # Other software
     text += "\n\nOther software:" +\
-            "\n - FCS_point_correlator ({})".format(read_pt3_scripts.version) +\
+            "\n - FCS_point_correlator ({})".format(
+                read_pt3_scripts.version) +\
             "\n    PicoQuant file format for Python by Dominic Waithe"
     if hasattr(sys, 'frozen'):
         pyinst = "\n\nThis executable has been created using PyInstaller."
@@ -114,41 +115,6 @@ def SoftwareUsed():
     return text
 
 
-support = """
-PyCorrFit has no funding and a vanishingly small developer community.
-My personal objective is to keep PyCorrFit operational on Linux and
-Windows which is currently limited by the free time I have available.
-
-An active community is very important for an open source project such
-as PyCorrFit. You can help this community grow (and thus help improve
-PyCorrFit) in numerous ways:
-
-1. \tTell your colleagues and peers about PyCorrFit. One of them might
-   \tbe able to contribute to the project.
-
-2. \tIf you need a new feature in PyCorrFit, publicly announce a bounty
-   \tfor its implementation.
-
-3. \tIf your research heavily relies on FCS, please consider diverting
-   \tsome of your resources to the development of PyCorrFit.
-
-4. \tYou don't have to be a Python programmer to contribute. If you are
-   \tfamiliar with reStrucuredText or LaTeX, you might be able to help
-   \tout with the online documentation.
-
-5. \tPlease cite: Müller et al. Bioinformatics 30(17): 2532–2533, 2014
-
-If you are planning to contribute to PyCorrFit, please contact me via
-the PyCorrFit issue page on GitHub such that we may coordinate a pull
-request.
-
-
-Thank you!
-
-Paul Müller (May 2018)
-"""
-
-
 # Standard homepage
 HomePage = "http://pycorrfit.craban.de/"
 # Changelog filename

pycorrfit/gui/frontend.py

@@ -24,6 +24,7 @@ from pycorrfit import meta
 
 
 # PyCorrFit modules
+from . import contribute
 from . import doc
 from . import edclasses
 from . import misc
@@ -189,7 +190,7 @@ class MyFrame(wx.Frame):
 
         # Display support dialog
         if hasattr(sys, "frozen"):
-            self.OnSupport()
+            self.OnContribute()
 
     def add_fitting_tab(self, event=None, modelid=None, counter=None,
                         select=False):
@@ -369,8 +370,8 @@ class MyFrame(wx.Frame):
                     menuentry = submenu.Append(model[0], model[1], model[2])
                 self.Bind(wx.EVT_MENU, self.add_fitting_tab, menuentry)
         # help menu
-        menuSupport = helpmenu.Append(wx.ID_ANY, "&Support",
-                                      "How to (get) support (for) PyCorrFit")
+        menuContribute = helpmenu.Append(wx.ID_ANY, "&Contribute",
+                                         "How to contribute to PyCorrFit")
         menuDocu = helpmenu.Append(wx.ID_ANY, "&Documentation",
                                    "PyCorrFit documentation")
         menuWiki = helpmenu.Append(wx.ID_ANY, "&Wiki",
@@ -418,7 +419,7 @@ class MyFrame(wx.Frame):
         self.Bind(wx.EVT_MENU, self.OnLatexCheck, self.MenuUseLatex)
         # Help
         self.Bind(wx.EVT_MENU, self.OnSoftware, menuSoftw)
-        self.Bind(wx.EVT_MENU, self.OnSupport, menuSupport)
+        self.Bind(wx.EVT_MENU, self.OnContribute, menuContribute)
         self.Bind(wx.EVT_MENU, self.OnAbout, menuAbout)
         self.Bind(wx.EVT_MENU, self.OnUpdate, menuUpdate)
         self.Bind(wx.EVT_MENU, self.OnDocumentation, menuDocu)
@@ -631,6 +632,11 @@ class MyFrame(wx.Frame):
             # Close Dialog
             self.EditCommentDlg.OnClose()
 
+    def OnContribute(self, event=None):
+        # Show contribute dialog
+        dlg = contribute.ContributeDialog(self)
+        dlg.ShowModal()
+
     def OnDeletePage(self, event=None):
         """
         This method is based on the flatnotebook demo
@@ -1683,11 +1689,6 @@ class MyFrame(wx.Frame):
         text = doc.SoftwareUsed()
         wx.MessageBox(text, 'Software', wx.OK | wx.ICON_INFORMATION)
 
-    def OnSupport(self, event=None):
-        # Show About Information
-        text = doc.support
-        wx.MessageBox(text, 'Support PyCorrFit', wx.OK | wx.ICON_INFORMATION)
-
     def OnTool(self, event):
         eid = event.GetId()
         try: