[med-svn] [Git][med-team/ncbi-tools6][master] 9 commits: Formally start work on ncbi-tools6 6.1.20170106+dfsg1-10.
Aaron M. Ucko (@ucko)
gitlab at salsa.debian.org
Fri Sep 2 21:38:43 BST 2022
Aaron M. Ucko pushed to branch master at Debian Med / ncbi-tools6
Commits:
f23668d8 by Aaron M. Ucko at 2022-08-07T15:33:26-04:00
Formally start work on ncbi-tools6 6.1.20170106+dfsg1-10.
- - - - -
08ecfeeb by Aaron M. Ucko at 2022-09-02T15:28:57-04:00
debian/.ncbirc: Help igblast find the auxiliary data it will ship.
- - - - -
a9c3342c by Aaron M. Ucko at 2022-09-02T15:29:55-04:00
routine-update: Standards-Version: 4.6.1
- - - - -
bfc605da by Aaron M. Ucko at 2022-09-02T15:29:55-04:00
routine-update: debhelper-compat 13
- - - - -
9abbdfae by Aaron M. Ucko at 2022-09-02T15:39:11-04:00
Reorder sequence of d/control fields by cme (routine-update)
- - - - -
f2a723b1 by Aaron M. Ucko at 2022-09-02T15:39:45-04:00
Remove trailing whitespace in debian/copyright (routine-update)
- - - - -
8a3b9cc7 by Aaron M. Ucko at 2022-09-02T15:39:56-04:00
routine-update: Add salsa-ci file
- - - - -
c81be8b5 by Aaron M. Ucko at 2022-09-02T16:26:09-04:00
Ignore spurious source-is-missing for wwwblast readme.html files.
debian/source/lintian-overrides: Ignore spurious source-is-missing for
unwrapped text in readme.html files under network/wwwblast (but not for
webdesign/designs/cubby/filters/ClinicalTrials.html, where it's more
legitimate -- that file is a dump of HTML generated on an old web server).
- - - - -
0872cc81 by Aaron M. Ucko at 2022-09-02T16:28:02-04:00
Finalize ncbi-tools6 6.1.20170106+dfsg1-10 for unstable.
- - - - -
6 changed files:
- debian/.ncbirc
- debian/changelog
- debian/control
- debian/copyright
- + debian/salsa-ci.yml
- debian/source/lintian-overrides
Changes:
=====================================
debian/.ncbirc
=====================================
@@ -72,3 +72,5 @@ STANDARD=Times,12
DISPLAY=Courier,10
FETCHED=Times,14
+[BLAST]
+IGDATA=/usr/share/ncbi/igblast
=====================================
debian/changelog
=====================================
@@ -1,3 +1,18 @@
+ncbi-tools6 (6.1.20170106+dfsg1-10) unstable; urgency=medium
+
+ * debian/.ncbirc: Help igblast find the auxiliary data it will ship.
+ * debian/source/lintian-overrides: Ignore spurious source-is-missing for
+ unwrapped text in readme.html files under network/wwwblast (but not for
+ webdesign/designs/cubby/filters/ClinicalTrials.html, where it's more
+ legitimate -- that file is a dump of HTML generated on an old web server).
+ * Standards-Version: 4.6.1 (routine-update)
+ * debhelper-compat 13 (routine-update)
+ * Reorder sequence of d/control fields by cme (routine-update)
+ * Remove trailing whitespace in debian/copyright (routine-update)
+ * Add salsa-ci file (routine-update)
+
+ -- Aaron M. Ucko <ucko at debian.org> Fri, 02 Sep 2022 16:28:02 -0400
+
ncbi-tools6 (6.1.20170106+dfsg1-9) unstable; urgency=medium
[ Andreas Tille ]
=====================================
debian/control
=====================================
@@ -3,7 +3,7 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.
Uploaders: Aaron M. Ucko <ucko at debian.org>
Section: libdevel
Priority: optional
-Build-Depends: debhelper-compat (= 12)
+Build-Depends: debhelper-compat (= 13)
Build-Depends-Arch: csh | c-shell,
libglu1-mesa-dev | libglu-dev,
libgnutls28-dev | gnutls-dev,
@@ -13,7 +13,7 @@ Build-Depends-Arch: csh | c-shell,
libxmu-dev
Build-Depends-Indep: icoutils,
imagemagick
-Standards-Version: 4.5.0
+Standards-Version: 4.6.1
Vcs-Browser: https://salsa.debian.org/med-team/ncbi-tools6
Vcs-Git: https://salsa.debian.org/med-team/ncbi-tools6.git
Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/
@@ -39,8 +39,6 @@ Depends: libncbi6 (= ${binary:Version}),
${misc:Depends}
Recommends: ncbi-tools-bin
Provides: ncbi-tools-dev
-Breaks: libvibrant6-dev (<< 6.1.20170106-9~)
-Replaces: libvibrant6-dev (<< 6.1.20170106-9~)
Description: NCBI libraries for biology applications (development files)
This package supplies development versions of NCBI's non-graphical C
libraries, along with the corresponding header files.
@@ -50,8 +48,6 @@ Architecture: all
Multi-Arch: foreign
Section: libs
Depends: ${misc:Depends}
-Breaks: ncbi-rrna-data (<< 6.1.20160908)
-Replaces: ncbi-rrna-data (<< 6.1.20160908)
Description: Platform-independent data for the NCBI toolkit
This package contains support files needed by the NCBI toolkit on all
platforms.
@@ -63,8 +59,6 @@ Section: science
Depends: ncbi-data,
${misc:Depends}
Recommends: ncbi-blast+
-Breaks: ncbi-data (<< 6.1.20160908)
-Replaces: ncbi-data (<< 6.1.20160908)
Description: large rRNA BLAST databases distributed with the NCBI toolkit
This package contains some ribosomal RNA BLAST databases distributed
as part of the NCBI C Toolkit that are too large and specialized to
@@ -86,8 +80,6 @@ Suggests: libvibrant6b,
ncbi-blast+,
ncbi-cn3d,
ncbi-tools-x11
-Breaks: blast2 (<< 1:2.2.26.20160908)
-Replaces: blast2 (<< 1:2.2.26.20160908)
Description: NCBI libraries for biology applications (text-based utilities)
This package includes various utilities distributed with the NCBI C SDK,
including the development tools asntool and errhdr (formerly of
@@ -125,7 +117,7 @@ Depends: libncbi6 (<< ${source:Upstream-Version}.1),
${misc:Depends},
${shlibs:Depends}
Suggests: ncbi-tools-bin,
- ncbi-tools-x11
+ ncbi-tools-x11
Breaks: ncbi-tools-x11 (<< 6.1.20170106+dfsg1-5~)
Replaces: ncbi-tools-x11 (<< 6.1.20170106+dfsg1-5~)
Description: 3-dimensional viewer for biological molecules
@@ -140,8 +132,8 @@ Depends: libncbi6 (<< ${source:Upstream-Version}.1),
libncbi6 (>= ${source:Upstream-Version}),
${misc:Depends},
${shlibs:Depends}
+Recommends: sensible-utils
Pre-Depends: ${misc:Pre-Depends}
-Recommends: sensible-utils,
Conflicts: libvibrant6,
libvibrant6a
Replaces: libvibrant6,
=====================================
debian/copyright
=====================================
@@ -166,7 +166,7 @@ License: MIT
original MIT software. M.I.T. makes no representations about the
suitability of this software for any purpose. It is provided "as is"
without express or implied warranty.
- .
+ .
THIS SOFTWARE IS PROVIDED ``AS IS'' AND WITHOUT ANY EXPRESS OR IMPLIED
WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED WARRANTIES OF
MERCHANTIBILITY AND FITNESS FOR A PARTICULAR PURPOSE.
=====================================
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/source/lintian-overrides
=====================================
@@ -1 +1,2 @@
ncbi-tools6 source: custom-compression-in-debian-rules * -pncbi-rrna-data *
+ncbi-tools6 source: source-is-missing [network/wwwblast/*readme.html]
View it on GitLab: https://salsa.debian.org/med-team/ncbi-tools6/-/compare/cc4225e1a69834fe50f397a41dafefcec14fd13c...0872cc8190e7087fc9bad8645d4b6d0818f8a179
--
View it on GitLab: https://salsa.debian.org/med-team/ncbi-tools6/-/compare/cc4225e1a69834fe50f397a41dafefcec14fd13c...0872cc8190e7087fc9bad8645d4b6d0818f8a179
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