debian/.gitignore

@@ -7,6 +7,7 @@ libncbi6
 libvibrant6b
 lib*-dbg
 lib*-dev
+ncbi-cn3d
 ncbi-data
 ncbi-rrna-data
 ncbi-tools-bin

debian/changelog

+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@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

+usr/bin/Cn3D-3.0

debian/ncbi-tools-x11.install

-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