Andreas Tille pushed to branch master at Debian Med / python-misopy
Commits:
61e0f19e by Andreas Tille at 2021-03-24T08:54:22+01:00
Remove Python3 package
- - - - -
f3a35fba by Andreas Tille at 2021-03-24T08:54:52+01:00
routine-update: Standards-Version: 4.5.1
- - - - -
7d9d2a91 by Andreas Tille at 2021-03-24T08:54:52+01:00
routine-update: debhelper-compat 13
- - - - -
7caf585c by Andreas Tille at 2021-03-24T08:54:55+01:00
routine-update: autopkgtest: s/ADTTMP/AUTOPKGTEST_TMP/g
- - - - -
8870bf4d by Andreas Tille at 2021-03-24T08:54:55+01:00
routine-update: Add salsa-ci file
- - - - -
357e080b by Andreas Tille at 2021-03-24T08:54:55+01:00
routine-update: Rules-Requires-Root: no
- - - - -
77f85864 by Andreas Tille at 2021-03-24T08:54:56+01:00
routine-update: watch file standard 4
- - - - -
795cdae4 by Andreas Tille at 2021-03-24T08:57:04+01:00
Cleanup changelog, package does not yet build properly
- - - - -
7 changed files:
- debian/changelog
- − debian/compat
- debian/control
- debian/rules
- + debian/salsa-ci.yml
- debian/tests/run-unit-test
- debian/watch
Changes:
=====================================
debian/changelog
=====================================
@@ -3,4 +3,4 @@ python-misopy (0.5.4+dfsg-1) UNRELEASED; urgency=low
* Initial release (Closes: #nnnn)
* Not using internal f2c redistribution.
- -- Andreas Tille <ti...@debian.org> Tue, 30 Oct 2018 07:34:46 +0100
+ -- Andreas Tille <ti...@debian.org> Wed, 24 Mar 2021 08:54:56 +0100
=====================================
debian/compat deleted
=====================================
@@ -1 +0,0 @@
-11
=====================================
debian/control
=====================================
@@ -4,46 +4,20 @@ Uploaders: Steffen Moeller <moel...@debian.org>,
Andreas Tille <ti...@debian.org>
Section: python
Priority: optional
-Build-Depends: debhelper (>= 11~),
+Build-Depends: debhelper-compat (= 13),
dh-python,
- python-all-dev,
python3-all-dev,
- python-setuptools,
- python-pysam,
- python-scipy,
- python-matplotlib,
python3-pysam,
python3-scipy,
python3-matplotlib,
python3-setuptools,
samtools,
libf2c2-dev
-Standards-Version: 4.2.1
+Standards-Version: 4.5.1
Vcs-Browser: https://salsa.debian.org/med-team/python-misopy
Vcs-Git: https://salsa.debian.org/med-team/python-misopy.git
Homepage: http://genes.mit.edu/burgelab/miso/
-
-Package: python-misopy
-Architecture: any
-Depends: ${shlibs:Depends},
- ${python:Depends},
- ${misc:Depends},
- python-pysam,
- python-scipy,
- python-matplotlib,
- samtools
-Description: Mixture of Isoforms model for RNA-Seq isoform quantitation
- MISO (Mixture of Isoforms) is a probabilistic framework that quantitates
- the expression level of alternatively spliced genes from RNA-Seq
- data, and identifies differentially regulated isoforms or exons across
- samples. By modeling the generative process by which reads are produced
- from isoforms in RNA-Seq, the MISO model uses Bayesian inference to
- compute the probability that a read originated from a particular isoform.
- .
- MISO uses the inferred assignment of reads to isoforms to quantitate the
- abundances of the underlying set of alternative mRNA isoforms. Confidence
- intervals over estimates can be obtained, which quantify the reliability
- of the estimates.
+Rules-Requires-Root: no
Package: python3-misopy
Architecture: any
=====================================
debian/rules
=====================================
@@ -28,4 +28,3 @@ override_dh_auto_install:
override_dh_clean:
rm -rf tmp a.out
dh_clean
-
=====================================
debian/salsa-ci.yml
=====================================
@@ -0,0 +1,4 @@
+---
+include:
+ - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml
+ -
https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml
=====================================
debian/tests/run-unit-test
=====================================
@@ -5,10 +5,10 @@
name=misopy
pkg=python-${name}
curdir=`pwd`
-if [ "$ADTTMP" = "" ] ; then
- ADTTMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
+if [ "$AUTOPKGTEST_TMP" = "" ] ; then
+ AUTOPKGTEST_TMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
fi
-cd $ADTTMP
+cd $AUTOPKGTEST_TMP
USEPYTHON=`pyversions -i | head -n 1`
mkdir -p $name
cp -a /usr/lib/$USEPYTHON/dist-packages/$name/test-data $name
=====================================
debian/watch
=====================================
@@ -1,4 +1,4 @@
-version=3
+version=4
opts="repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g" \
http://pypi.debian.net/misopy/misopy-(.+)\.tar.gz
View it on GitLab:
https://salsa.debian.org/med-team/python-misopy/-/compare/c1a1d6672afd70f176eeaad7e6b6438a7306cf2b...795cdae4bcfccfeb7ee983e449ce65a92c12a30d
--
View it on GitLab:
https://salsa.debian.org/med-team/python-misopy/-/compare/c1a1d6672afd70f176eeaad7e6b6438a7306cf2b...795cdae4bcfccfeb7ee983e449ce65a92c12a30d
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