[med-svn] [Git][med-team/fastqtl][master] 7 commits: d/control: adjust Recommends per recommendations.
Étienne Mollier (@emollier)
gitlab at salsa.debian.org
Mon Nov 17 21:48:28 GMT 2025
Étienne Mollier pushed to branch master at Debian Med / fastqtl
Commits:
60126318 by Étienne Mollier at 2025-11-17T22:34:18+01:00
d/control: adjust Recommends per recommendations.
Thanks: Charles Plessy for the hints.
Closes: #1113845
- - - - -
1e9344dc by Étienne Mollier at 2025-11-17T22:41:44+01:00
d/watch: repair and convert to v5 Github template.
- - - - -
bcfaf6d8 by Étienne Mollier at 2025-11-17T22:42:14+01:00
d/control: drop redundant Rules-Requires-Root: no.
- - - - -
6227c1ad by Étienne Mollier at 2025-11-17T22:42:35+01:00
d/control: declare compliance to standards version 4.7.2.
- - - - -
40534a55 by Étienne Mollier at 2025-11-17T22:45:16+01:00
d/copyright: drop the old FSF mail address.
- - - - -
cb0ccddb by Étienne Mollier at 2025-11-17T22:46:54+01:00
d/patches/*: normalize dep3 headers.
- - - - -
80f4bb2a by Étienne Mollier at 2025-11-17T22:47:56+01:00
d/changelog: ready for upload to unstable.
- - - - -
9 changed files:
- debian/changelog
- debian/control
- debian/copyright
- debian/patches/01_Makefile_dynamic_hardenings.patch
- debian/patches/02_Replace_libtabix_by_libhts.patch
- debian/patches/03_Reproducible_builds.patch
- debian/patches/cross.patch
- debian/patches/set_path.patch
- debian/watch
Changes:
=====================================
debian/changelog
=====================================
@@ -1,3 +1,15 @@
+fastqtl (2.184+v7+dfsg-5) unstable; urgency=medium
+
+ * d/control: adjust Recommends per recommendations.
+ Thanks to Charles Plessy for the hints. (Closes: #1113845)
+ * d/watch: repair and convert to v5 Github template.
+ * d/control: drop redundant Rules-Requires-Root: no.
+ * d/control: declare compliance to standards version 4.7.2.
+ * d/copyright: drop the old FSF mail address.
+ * d/patches/*: normalize dep3 headers.
+
+ -- Étienne Mollier <emollier at debian.org> Mon, 17 Nov 2025 22:47:43 +0100
+
fastqtl (2.184+v7+dfsg-4) unstable; urgency=medium
* d/control: add myself to uploaders.
=====================================
debian/control
=====================================
@@ -17,11 +17,10 @@ Build-Depends: debhelper-compat (= 13),
libeigen3-dev,
libhts-dev,
libbz2-dev
-Standards-Version: 4.6.1
+Standards-Version: 4.7.2
Vcs-Browser: https://salsa.debian.org/med-team/fastqtl
Vcs-Git: https://salsa.debian.org/med-team/fastqtl.git
Homepage: http://fastqtl.sourceforge.net/
-Rules-Requires-Root: no
Package: fastqtl
Architecture: any
@@ -29,8 +28,7 @@ Depends: ${shlibs:Depends},
${python3:Depends},
python3,
${misc:Depends}
-Recommends: r-cran-qvalue,
- r-cran-tools,
+Recommends: r-bioc-qvalue,
r-cran-argparser
Suggests: fastqtl-doc
Description: Quantitative Trait Loci (QTL) mapper in cis for molecular phenotypes
=====================================
debian/copyright
=====================================
@@ -41,10 +41,6 @@ License: GPL-3+
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
.
- You should have received a copy of the GNU General Public License
- along with this package; if not, write to the Free Software
- Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA
- .
On Debian systems, the full text of the GNU General Public License
version 3 can be found in `/usr/share/common-licenses/GPL-3'.
=====================================
debian/patches/01_Makefile_dynamic_hardenings.patch
=====================================
@@ -1,7 +1,7 @@
Author: Dylan Aïssi <bob.dybian at gmail.com>
Description: Patch the makefile in order to use a full dynamic linking and to activate hardenings.
Last-Update: 2016-04-30
-Forwarded: TODO
+Forwarded: no
--- a/Makefile
+++ b/Makefile
=====================================
debian/patches/02_Replace_libtabix_by_libhts.patch
=====================================
@@ -1,7 +1,7 @@
Author: Dylan Aïssi <bob.dybian at gmail.com>
Description: Merge src/utils/tabix.*pp with upstream (libtabixpp 1.0.0) in order to use libhts instead libtabix.
Last-Update: 2016-04-29
-Forwarded: No
+Forwarded: no
--- a/Makefile
=====================================
debian/patches/03_Reproducible_builds.patch
=====================================
@@ -3,7 +3,7 @@ Author: Dylan Aïssi <bob.dybian at gmail.com>,
Description: Patch the makefile in order to enable reproducible builds (stable order for inputs).
Last-Update: 2016-12-16
Bug-Debian: https://bugs.debian.org/848292
-Forwarded: TODO
+Forwarded: no
--- a/Makefile
+++ b/Makefile
=====================================
debian/patches/cross.patch
=====================================
@@ -1,5 +1,5 @@
Author: Helmut Grohne <helmut at subdivi.de>
-Last-Update: Mon, 9 Sep 2019 06:18:33 +0200
+Last-Update: 2019-09-09
Description: pass cross tools to make
Bug-Debian: https://bugs.debian.org/939811
=====================================
debian/patches/set_path.patch
=====================================
@@ -1,5 +1,5 @@
Author: Andreas Tille <tille at debian.org>
-Last-Update: Wed, 05 Oct 2022 10:30:56 +0200
+Last-Update: 2022-10-05
Description: Fix path to R script
--- a/python/run_FastQTL_threaded.py
=====================================
debian/watch
=====================================
@@ -1,7 +1,11 @@
-version=4
+Version: 5
+# Note: superseded by tensorQTL[1].
+# [1]: https://github.com/broadinstitute/tensorqtl
-opts="uversionmangle=s/v/2.184+v/,dversionmangle=s/^2.184\+v//;auto,repacksuffix=+dfsg,filenamemangle=s%(?:.*?)?v?(\d[\d.]*)\.tar\.gz%@PACKAGE at -2.184+v$1.tar.gz%" \
- https://github.com/francois-a/fastqtl/tags (?:.*?/)?v?(\d[\d.]*)\.tar\.gz
-
-#opts="repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g,repack,compression=xz" \
-# http://fastqtl.sourceforge.net/pages/install.html http://fastqtl.sourceforge.net/files/FastQTL-(\d\S*).linux\.tgz
+Template: Github
+Owner: francois-a
+Project: fastqtl
+Repack: yes
+Repack-Suffix: +dfsg
+DVersion-Mangle: auto
+UVersion-Mangle: s/^/2.184+v/
View it on GitLab: https://salsa.debian.org/med-team/fastqtl/-/compare/713398e10ec6a4ae113c12ba69995f859bae056e...80f4bb2a6dd12d4b88c626484fcca31227bb11e5
--
View it on GitLab: https://salsa.debian.org/med-team/fastqtl/-/compare/713398e10ec6a4ae113c12ba69995f859bae056e...80f4bb2a6dd12d4b88c626484fcca31227bb11e5
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