[med-svn] [Git][med-team/ncbi-tools6][master] 4 commits: Formally start work on ncbi-tools6 6.1.20170106-7.
Aaron M. Ucko
gitlab at salsa.debian.org
Fri Feb 22 04:29:11 GMT 2019
Aaron M. Ucko pushed to branch master at Debian Med / ncbi-tools6
Commits:
490addd5 by Aaron M. Ucko at 2019-02-22T04:17:20Z
Formally start work on ncbi-tools6 6.1.20170106-7.
- - - - -
0761d997 by Aaron M. Ucko at 2019-02-22T04:20:08Z
Add a changelog entry for Steffen's metadata file.
- - - - -
e1fc91b7 by Aaron M. Ucko at 2019-02-22T04:22:11Z
Split Cn3D(-3.0) out into a new ncbi-cn3d binary package.
Update debian/upstream/metadata accordingly.
- - - - -
2abd4cf1 by Aaron M. Ucko at 2019-02-22T04:28:45Z
debian/upstream/metadata: Quote title because it contains a colon.
- - - - -
10 changed files:
- debian/.gitignore
- debian/changelog
- debian/control
- + debian/ncbi-cn3d.install
- debian/ncbi-tools-x11.mime → debian/ncbi-cn3d.mime
- debian/ncbi-tools-x11.postinst → debian/ncbi-cn3d.postinst
- debian/ncbi-tools-x11.prerm → debian/ncbi-cn3d.prerm
- debian/ncbi-tools-x11.install
- debian/rules
- debian/upstream/metadata
Changes:
=====================================
debian/.gitignore
=====================================
@@ -7,6 +7,7 @@ libncbi6
libvibrant6b
lib*-dbg
lib*-dev
+ncbi-cn3d
ncbi-data
ncbi-rrna-data
ncbi-tools-bin
=====================================
debian/changelog
=====================================
@@ -1,3 +1,17 @@
+ncbi-tools6 (6.1.20170106-7) UNRELEASED; urgency=medium
+
+ * NOT RELEASED YET.
+
+ [ Steffen Möller ]
+ * debian/upstream/metadata: Add metadata for Cn3D.
+
+ [ Aaron M. Ucko ]
+ * Split Cn3D(-3.0) out into a new ncbi-cn3d binary package; update
+ debian/upstream/metadata accordingly.
+ * debian/upstream/metadata: Quote title because it contains a colon.
+
+ -- Aaron M. Ucko <ucko at debian.org> Thu, 21 Feb 2019 23:28:44 -0500
+
ncbi-tools6 (6.1.20170106-6) unstable; urgency=medium
* debian/rules: Find indirectly needed libraries via -rpath-link rather
=====================================
debian/control
=====================================
@@ -82,6 +82,7 @@ Depends: libncbi6 (<< ${source:Upstream-Version}.1),
${shlibs:Depends}
Suggests: libvibrant6b,
ncbi-blast+,
+ ncbi-cn3d,
ncbi-tools-x11
Breaks: blast2 (<< 1:2.2.26.20160908)
Replaces: blast2 (<< 1:2.2.26.20160908)
@@ -101,14 +102,33 @@ Depends: libncbi6 (<< ${source:Upstream-Version}.1),
libncbi6 (>= ${source:Upstream-Version}),
libvibrant6b (<< ${source:Upstream-Version}.1),
libvibrant6b (>= ${source:Upstream-Version}),
+ ncbi-cn3d,
${misc:Depends},
${shlibs:Depends}
Suggests: ncbi-tools-bin
Description: NCBI libraries for biology applications (X-based utilities)
This package includes some X-based utilities distributed with the
- NCBI C SDK: Cn3D, Network Entrez, Sequin, ddv, and udv. These
- programs are not part of ncbi-tools-bin because they depend on
- several additional library packages.
+ NCBI C SDK: Network Entrez, Sequin, ddv, and udv. These programs
+ are not part of ncbi-tools-bin because they depend on several
+ additional library packages.
+
+Package: ncbi-cn3d
+Architecture: any
+Multi-Arch: foreign
+Section: science
+Depends: libncbi6 (<< ${source:Upstream-Version}.1),
+ libncbi6 (>= ${source:Upstream-Version}),
+ libvibrant6b (<< ${source:Upstream-Version}.1),
+ libvibrant6b (>= ${source:Upstream-Version}),
+ ${misc:Depends},
+ ${shlibs:Depends}
+Suggests: ncbi-tools-bin,
+ ncbi-tools-x11
+Breaks: ncbi-tools-x11 (<< 6.1.20170106-7~)
+Replaces: ncbi-tools-x11 (<< 6.1.20170106-7~)
+Description: 3-dimensional viewer for biological molecules
+ Cn3D is a helper application for your web browser that allows you to
+ view 3-dimensional structures from NCBI's Entrez retrieval service.
Package: libvibrant6b
Architecture: any
=====================================
debian/ncbi-cn3d.install
=====================================
@@ -0,0 +1 @@
+usr/bin/Cn3D-3.0
=====================================
debian/ncbi-tools-x11.mime → debian/ncbi-cn3d.mime
=====================================
=====================================
debian/ncbi-tools-x11.postinst → debian/ncbi-cn3d.postinst
=====================================
=====================================
debian/ncbi-tools-x11.prerm → debian/ncbi-cn3d.prerm
=====================================
=====================================
debian/ncbi-tools-x11.install
=====================================
@@ -1,4 +1,3 @@
-usr/bin/Cn3D-3.0
usr/bin/Psequin
usr/bin/ddv
usr/bin/entrez2
=====================================
debian/rules
=====================================
@@ -186,6 +186,7 @@ override_dh_installchangelogs:
override_dh_installmenu-arch:
chmod +x debian/makemenu
+ debian/makemenu debian/ncbi-cn3d.install
debian/makemenu debian/ncbi-tools-x11.install
# debian/makemenu -v debian/ncbi-tools-bin.install
dh_installmenu
@@ -205,6 +206,7 @@ override_dh_installman:
dh_link # otherwise runs too late to influence debian/installman
chmod +x debian/installman
ifneq "" "$(filter ncbi-tools-bin, $(shell dh_listpackages))"
+ debian/installman ncbi-cn3d
debian/installman ncbi-tools-bin
debian/installman ncbi-tools-x11
endif
=====================================
debian/upstream/metadata
=====================================
@@ -3,7 +3,7 @@ Reference:
Yanli Wang and Lewis Y. Geer and Colombe Chappey and Jonathan A. Kans and
Stephen H. Bryant and Yanli Wang and Lewis Y. Geer and Colombe Chappey and
Jonathan A. Kans and Stephen H. Bryant
- Title: Cn3D: sequence and structure views for Entrez
+ Title: "Cn3D: sequence and structure views for Entrez"
Journal: Trends Biochem Sci.
Year: 2000
Month: 6
@@ -13,14 +13,14 @@ Reference:
PMID: 10838572
URL: https://linkinghub.elsevier.com/retrieve/pii/S0968-0004(00)01561-9
DOI: https://doi.org/10.1016/S0968-0004(00)01561-9
- Debian-package: ncbi-tools-x11
+ Debian-package: ncbi-cn3d
Registry:
- Name: OMICtools
Entry: OMICS_05052
- Debian-package: ncbi-tools-x11
+ Debian-package: ncbi-cn3d
- Name: bio.tools
Entry: cn3d
- Debian-package: ncbi-tools-x11
+ Debian-package: ncbi-cn3d
- Name: SciCrunch
Entry: SCR_004861
- Debian-package: ncbi-tools-x11
+ Debian-package: ncbi-cn3d
View it on GitLab: https://salsa.debian.org/med-team/ncbi-tools6/compare/1f14b74afcb797d9db248352e427d3430b7853fd...2abd4cf15bdbce091a5b3574585a56ebeffce60b
--
View it on GitLab: https://salsa.debian.org/med-team/ncbi-tools6/compare/1f14b74afcb797d9db248352e427d3430b7853fd...2abd4cf15bdbce091a5b3574585a56ebeffce60b
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