[med-svn] [modeller] 01/01: No intend to package this non-free software myself, but the entry on the tasks pages was broken and so I'm submitting packaging metadata that way.

Thu Oct 19 12:04:04 UTC 2017

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tille pushed a commit to branch master
in repository modeller.

commit 88d3963d14540f4f99bc87d3d1cf1c80389cb831
Author: Andreas Tille <tille at debian.org>
Date:   Thu Oct 19 14:03:11 2017 +0200

    No intend to package this non-free software myself, but the entry on the tasks pages was broken and so I'm submitting packaging metadata that way.
---
 debian/changelog         |  6 ++++++
 debian/compat            |  1 +
 debian/control           | 25 +++++++++++++++++++++++++
 debian/copyright         | 14 ++++++++++++++
 debian/rules             | 22 ++++++++++++++++++++++
 debian/source/format     |  1 +
 debian/upstream/metadata | 30 ++++++++++++++++++++++++++++++
 7 files changed, 99 insertions(+)

diff --git a/debian/changelog b/debian/changelog
new file mode 100644
index 0000000..e022339
--- /dev/null
+++ b/debian/changelog
@@ -0,0 +1,6 @@
+modeller (9.19-1) UNRELEASED; urgency=medium
+
+  * No intend to package non-free software - just keeping packaging
+    metadata of interesting targets for our tasks pages.
+
+ -- DMPT <debian-med-packaging at lists.alioth.debian.org>  Thu, 19 Oct 2017 13:59:47 +0200
diff --git a/debian/compat b/debian/compat
new file mode 100644
index 0000000..f599e28
--- /dev/null
+++ b/debian/compat
@@ -0,0 +1 @@
+10
diff --git a/debian/control b/debian/control
new file mode 100644
index 0000000..15028dd
--- /dev/null
+++ b/debian/control
@@ -0,0 +1,25 @@
+Source: modeller
+Section: non-free/science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: DMPT <debian-med-packaging at lists.alioth.debian.org>
+Build-Depends: debhelper (>= 10)
+Standards-Version: 4.1.1
+Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/modeller.git
+Vcs-Git: https://anonscm.debian.org/git/debian-med/modeller.git
+Homepage: https://salilab.org/modeller/
+
+Package: modeller
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: Protein structure modeling by satisfaction of spatial restraints
+ MODELLER is used for homology or comparative modeling of protein
+ three-dimensional structures (1). The user provides an alignment of a
+ sequence to be modeled with known related structures and MODELLER automatically
+ calculates a model containing all non-hydrogen atoms. MODELLER implements
+ comparative protein structure modeling by satisfaction of spatial restraints
+ (2, 3), and can perform many additional tasks, including de novo modeling of
+ loops in protein structures, optimization of various models of protein
+ structure with respect to a flexibly defined objective function, multiple
+ alignment of protein sequences and/or structures, clustering, searching of
+ sequence databases, comparison of protein structures, etc.
diff --git a/debian/copyright b/debian/copyright
new file mode 100644
index 0000000..868bbe2
--- /dev/null
+++ b/debian/copyright
@@ -0,0 +1,14 @@
+Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: Modeller
+Upstream-Contact: modeller-care at salilab.org
+Source: https://salilab.org/modeller/download_installation.html
+
+Files: *
+Copyright: 20xx-20yy <upstream>
+License: non-free_academic
+ MODELLER is available free of charge to academic non-profit institutions
+ (you will, however, need to register for a license).
+
+Files: debian/*
+Copyright: 2017 Andreas Tille <tille at debian.org>
+License: BSD-3-clause
diff --git a/debian/rules b/debian/rules
new file mode 100755
index 0000000..62983db
--- /dev/null
+++ b/debian/rules
@@ -0,0 +1,22 @@
+#!/usr/bin/make -f
+
+# DH_VERBOSE := 1
+export LC_ALL=C.UTF-8
+
+include /usr/share/dpkg/default.mk
+# this provides:
+# DEB_SOURCE: the source package name
+# DEB_VERSION: the full version of the package (epoch + upstream vers. + revision)
+# DEB_VERSION_EPOCH_UPSTREAM: the package's version without the Debian revision
+# DEB_VERSION_UPSTREAM_REVISION: the package's version without the Debian epoch
+# DEB_VERSION_UPSTREAM: the package's upstream version
+# DEB_DISTRIBUTION: the distribution(s) listed in the current entry of debian/changelog
+
+# for hardening you might like to uncomment this:
+# export DEB_BUILD_MAINT_OPTIONS=hardening=+all
+
+%:
+	dh $@
+
+#get-orig-source:
+#	. debian/get-orig-source
diff --git a/debian/source/format b/debian/source/format
new file mode 100644
index 0000000..163aaf8
--- /dev/null
+++ b/debian/source/format
@@ -0,0 +1 @@
+3.0 (quilt)
diff --git a/debian/upstream/metadata b/debian/upstream/metadata
new file mode 100644
index 0000000..c250c3c
--- /dev/null
+++ b/debian/upstream/metadata
@@ -0,0 +1,30 @@
+Reference:
+ - Author:  M.A. Marti-Renom and A. Stuart and A. Fiser and R. Sánchez and F. Melo, A. Sali.
+   Title: "Comparative protein structure modeling of genes and genomes"
+   Journal: Annu Rev Biophys Biomol Struct. 
+   Year: 2000
+   Volume: 29
+   Pages: 291-325
+   DOI: 10.1146/annurev.biophys.29.1.291
+   PMID: 10940251
+   URL: http://www.annualreviews.org/doi/10.1146/annurev.biophys.29.1.291
+ - Author: A. Sali and T.L. Blundell
+   Title: Comparative protein modelling by satisfaction of spatial restraints
+   Journal: J. Mol. Biol. 
+   Year: 1993
+   Volume: 234
+   Number: 3
+   Pages: 779-815
+   DOI: 10.1006/jmbi.1993.1626
+   PMID: 8254673
+   URL: http://www.sciencedirect.com/science/article/pii/S0022283683716268
+ - Author: A. Fiser and R.K. Do and A. Sali
+   Title: Modeling of loops in protein structures
+   Journal: Protein Science
+   Year: 2000
+   Volume: 9
+   Number: 9
+   Pages: 1753-1773
+   DOI: 10.1110/ps.9.9.1753
+   PMID: 11045621
+   URL: http://onlinelibrary.wiley.com/doi/10.1110/ps.9.9.1753/abstract

-- 
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