[med-svn] [Git][med-team/pycorrfit][master] 9 commits: routine-update: Packaging update
Andreas Tille (@tille)
gitlab at salsa.debian.org
Thu Aug 4 21:53:31 BST 2022
Andreas Tille pushed to branch master at Debian Med / pycorrfit
Commits:
4cb9b35e by Andreas Tille at 2022-08-04T16:10:59+02:00
routine-update: Packaging update
- - - - -
ca103b7e by Andreas Tille at 2022-08-04T16:10:59+02:00
routine-update: Standards-Version: 4.6.1
- - - - -
93c3e11b by Andreas Tille at 2022-08-04T16:10:59+02:00
routine-update: debhelper-compat 13
- - - - -
724f4600 by Andreas Tille at 2022-08-04T16:12:36+02:00
Drop unneeded versioned Depends
- - - - -
d4ab94f5 by Andreas Tille at 2022-08-04T16:12:43+02:00
routine-update: Do not parse d/changelog
- - - - -
f73dd46c by Andreas Tille at 2022-08-04T16:12:43+02:00
routine-update: Add salsa-ci file
- - - - -
c87bf431 by Andreas Tille at 2022-08-04T16:12:43+02:00
routine-update: Rules-Requires-Root: no
- - - - -
8a6b5ea0 by Andreas Tille at 2022-08-04T16:12:51+02:00
Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse.
Changes-By: lintian-brush
Fixes: lintian: upstream-metadata-missing-bug-tracking
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-bug-tracking.html
Fixes: lintian: upstream-metadata-missing-repository
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-repository.html
- - - - -
c08d6a07 by Andreas Tille at 2022-08-04T22:52:37+02:00
Start dealing with LaTeX issue - some remaining UTF8 character needs to be replaced
- - - - -
6 changed files:
- debian/changelog
- debian/control
- + debian/patches/fix_doc.patch
- + debian/patches/series
- + debian/salsa-ci.yml
- debian/upstream/metadata
Changes:
=====================================
debian/changelog
=====================================
@@ -1,3 +1,16 @@
+pycorrfit (1.1.7+dfsg-2) UNRELEASED; urgency=medium
+
+ * Standards-Version: 4.6.1 (routine-update)
+ * debhelper-compat 13 (routine-update)
+ * Drop unneeded versioned Depends
+ * Do not parse d/changelog (routine-update)
+ * Add salsa-ci file (routine-update)
+ * Rules-Requires-Root: no (routine-update)
+ * Fix LaTeX issue
+ Closes: #1016346
+
+ -- Andreas Tille <tille at debian.org> Thu, 04 Aug 2022 16:10:59 +0200
+
pycorrfit (1.1.7+dfsg-1) unstable; urgency=medium
* Team upload.
=====================================
debian/control
=====================================
@@ -5,13 +5,13 @@ Uploaders: Alexandre Mestiashvili <mestia at debian.org>,
Section: python
Priority: optional
Build-Depends: cython3,
- debhelper-compat (= 12),
+ debhelper-compat (= 13),
dh-python,
faketime,
imagemagick,
librsvg2-bin,
python3-dev,
- python3-lmfit (>= 0.9.2),
+ python3-lmfit,
python3-matplotlib,
python3-numpy,
python3-pytest,
@@ -27,10 +27,11 @@ Build-Depends: cython3,
texlive-latex-extra,
texlive-latex-recommended,
texlive-science
-Standards-Version: 4.4.1
+Standards-Version: 4.6.1
Vcs-Browser: https://salsa.debian.org/med-team/pycorrfit
Vcs-Git: https://salsa.debian.org/med-team/pycorrfit.git
Homepage: https://fcs-analysis.github.io/PyCorrFit/
+Rules-Requires-Root: no
Package: pycorrfit
Architecture: any
=====================================
debian/patches/fix_doc.patch
=====================================
@@ -0,0 +1,81 @@
+Author: Andreas Tille <tille at debian.org>
+Last-Update: Thu, 04 Aug 2022 16:12:54 +0200
+Bug-Debian: https://bugs.debian.org/1016346
+Description: Fix LaTeX issue
+
+--- a/doc/PyCorrFit_doc.tex
++++ b/doc/PyCorrFit_doc.tex
+@@ -4,7 +4,7 @@
+ %Wir arbeiten mit PDF-Latex.
+ %Bei Texmaker unter Werkzeuge > PDFLaTeX (F6)
+
+-\usepackage[utf8x]{inputenc}
++\usepackage[utf8]{inputenc}
+ %\usepackage{tipa} % apt-get install tipa
+ %Für deutsche Schriften:
+ %\usepackage[ngerman]{babel}
+--- a/doc/PyCorrFit_doc_models.tex
++++ b/doc/PyCorrFit_doc_models.tex
+@@ -285,7 +285,7 @@ $\tau_\mathrm{trip}$ & Characteristic r
+
+ % 3D TIRF diffusion (□xσ)
+ \noindent \begin{tabular}{lp{.7\textwidth}}
+-Name & \textbf{TIR (□x$\upsigma$/Exp.) 3D} \\
++Name & \textbf{TIR ($\Box{}x\sigma$/Exp.) 3D} \\
+ ID & \textbf{6010} \\
+ Descr. & Three-dimensional diffusion with a square-shaped lateral detection area taking into account the size of the point spread function; and an exponential decaying profile in axial direction\cite{Ries2008, Yordanov2011}. \\
+ \end{tabular}
+@@ -310,17 +310,17 @@ $D$ & Diffusion coefficient \\
+
+ % 3D+3D TIRF diffusion (□xσ)
+ \noindent \begin{tabular}{lp{.7\textwidth}}
+-Name & \textbf{TIR (□x$\upsigma$/Exp.) 3D+3D} \\
++Name & \textbf{TIR ($\Box{}x\sigma$/Exp.) 3D+3D} \\
+ ID & \textbf{6023} \\
+ Descr. & Two-component three-dimensional free diffusion with a square-shaped lateral detection area taking into account the size of the point spread function; and an exponential decaying profile in axial direction. \newline
+-The correlation function is a superposition of three-dimensional model functions of the type \textbf{3D (□x$\upsigma$)} (6010)\cite{Ries2008, Yordanov2011}. \\
++The correlation function is a superposition of three-dimensional model functions of the type \textbf{3D ($\Box{}x\sigma$)} (6010)\cite{Ries2008, Yordanov2011}. \\
+ \end{tabular}
+ \vspace{2em}
+
+
+ % 2D TIRF diffusion (□xσ)
+ \noindent \begin{tabular}{lp{.7\textwidth}}
+-Name & \textbf{TIR (□x$\upsigma$) 2D} \\
++Name & \textbf{TIR ($\Box{}x\sigma$) 2D} \\
+ ID & \textbf{6000} \\
+ Descr. & Two-dimensional diffusion with a square-shaped lateral detection area taking into account the size of the point spread function\cite{Ries2008, Yordanov2011}\footnote{The reader is made aware, that reference \cite{Ries2008} contains several unfortunate misprints.}. \\
+ \end{tabular}
+@@ -344,27 +344,27 @@ $D$ & Diffusion coefficient \\
+
+ % 2D+2D TIRF diffusion (□xσ)
+ \noindent \begin{tabular}{lp{.7\textwidth}}
+-Name & \textbf{TIR (□x$\upsigma$) 2D+2D} \\
++Name & \textbf{TIR ($\Box{}x\sigma$) 2D+2D} \\
+ ID & \textbf{6022} \\
+ Descr. & Two-component two-dimensional diffusion with a square-shaped lateral detection area taking into account the size of the point spread function. \newline
+-The correlation function is a superposition of two-dimensional model functions of the type \textbf{2D (□x$\upsigma$)} (6000)\cite{Ries2008, Yordanov2011}. \\
++The correlation function is a superposition of two-dimensional model functions of the type \textbf{2D ($\Box{}x\sigma$)} (6000)\cite{Ries2008, Yordanov2011}. \\
+ \end{tabular}
+ \vspace{2em}
+
+
+ % 3D+2D TIRF diffusion (□xσ)
+ \noindent \begin{tabular}{lp{.7\textwidth}}
+-Name & \textbf{TIR (□x$\upsigma$/Exp.) 3D+2D} \\
++Name & \textbf{TIR ($\Box{}x\sigma$/Exp.) 3D+2D} \\
+ ID & \textbf{6020} \\
+ Descr. & Two-component two- and three-dimensional diffusion with a square-shaped lateral detection area taking into account the size of the point spread function; and an exponential decaying profile in axial direction. \newline
+-The correlation function is a superposition of the two-dimensional model function \textbf{2D (□x$\upsigma$)} (6000) and the three-dimensional model function \textbf{3D (□x$\upsigma$)} (6010)\cite{Ries2008, Yordanov2011}.
++The correlation function is a superposition of the two-dimensional model function \textbf{2D ($\Box{}x\sigma$)} (6000) and the three-dimensional model function \textbf{3D ($\Box{}x\sigma$)} (6010)\cite{Ries2008, Yordanov2011}.
+ \end{tabular}
+ \vspace{2em}
+
+
+ % 3D+2D+kin TIRF diffusion (□xσ)
+ \noindent \begin{tabular}{lp{.7\textwidth}}
+-Name & \textbf{TIR (□x$\upsigma$/Exp.) 3D+2D+kin} \\
++Name & \textbf{TIR ($\Box{}x\sigma$/Exp.) 3D+2D+kin} \\
+ ID & \textbf{6021} \\
+ Descr. & Two-component two- and three-dimensional diffusion with a square-shaped lateral detection area taking into account the size of the point spread function; and an exponential decaying profile in axial direction. This model covers binding and unbinding kintetics. \newline
+ The correlation function for this model was introduced in \cite{Ries2008}. Because approximations are made in the derivation, please verify if this model is applicable to your problem before using it.
=====================================
debian/patches/series
=====================================
@@ -0,0 +1 @@
+fix_doc.patch
=====================================
debian/salsa-ci.yml
=====================================
@@ -0,0 +1,4 @@
+---
+include:
+ - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml
+ - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml
=====================================
debian/upstream/metadata
=====================================
@@ -1,3 +1,5 @@
+Bug-Database: https://github.com/FCS-analysis/PyCorrFit/issues
+Bug-Submit: https://github.com/FCS-analysis/PyCorrFit/issues/new
Reference:
- Author: Paul Müller and Petra Schwille and Thomas Weidemann
Title: >
@@ -21,3 +23,5 @@ Registry:
Entry: NA
- Name: bio.tools
Entry: NA
+Repository: https://github.com/FCS-analysis/PyCorrFit.git
+Repository-Browse: https://github.com/FCS-analysis/PyCorrFit
View it on GitLab: https://salsa.debian.org/med-team/pycorrfit/-/compare/53bdf8bf942a58c0eb9ce60bad3f67eb136c1e66...c08d6a07533914031d0b47be641b8a8ac2306e2f
--
View it on GitLab: https://salsa.debian.org/med-team/pycorrfit/-/compare/53bdf8bf942a58c0eb9ce60bad3f67eb136c1e66...c08d6a07533914031d0b47be641b8a8ac2306e2f
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