[med-svn] [Git][med-team/unicycler][master] 7 commits: Fix watchfile to detect new versions on github
Andreas Tille (@tille)
gitlab at salsa.debian.org
Fri Oct 1 15:41:17 BST 2021
Andreas Tille pushed to branch master at Debian Med / unicycler
Commits:
79821ded by Andreas Tille at 2021-10-01T16:25:32+02:00
Fix watchfile to detect new versions on github
- - - - -
382623a5 by Andreas Tille at 2021-10-01T16:31:05+02:00
routine-update: Standards-Version: 4.6.0
- - - - -
96160bac by Andreas Tille at 2021-10-01T16:31:05+02:00
routine-update: debhelper-compat 13
- - - - -
76ec5af9 by Andreas Tille at 2021-10-01T16:31:09+02:00
routine-update: Add salsa-ci file
- - - - -
cb1d5d09 by Andreas Tille at 2021-10-01T16:31:09+02:00
routine-update: Rules-Requires-Root: no
- - - - -
0ec86eba by Andreas Tille at 2021-10-01T16:31:11+02:00
Set upstream metadata fields: Bug-Database, Bug-Submit.
Changes-By: lintian-brush
Fixes: lintian: upstream-metadata-missing-bug-tracking
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-bug-tracking.html
- - - - -
064b7adb by Andreas Tille at 2021-10-01T16:40:36+02:00
Seven really strange errors in test suite. The dependencies that are claimed missing are clearly available
- - - - -
5 changed files:
- debian/changelog
- debian/control
- + debian/salsa-ci.yml
- debian/upstream/metadata
- debian/watch
Changes:
=====================================
debian/changelog
=====================================
@@ -1,9 +1,81 @@
unicycler (0.4.9+dfsg-1) UNRELEASED; urgency=medium
+ [ Nilesh Patra ]
* d/watch: Fix watch regex
* New upstream version 0.4.9+dfsg
+
+ [ Andreas Tille ]
+ * Fix watchfile to detect new versions on github
+ * Standards-Version: 4.6.0 (routine-update)
+ * debhelper-compat 13 (routine-update)
+ * Add salsa-ci file (routine-update)
+ * Rules-Requires-Root: no (routine-update)
+ * Set upstream metadata fields: Bug-Database, Bug-Submit.
+
TODO: Error: Unicycler requires SPAdes v3.6.2 - v3.13.0
+======================================================================
+FAIL: test_bad_pilon (test.test_dependencies.TestDependencies)
+----------------------------------------------------------------------
+Traceback (most recent call last):
+ File "/build/unicycler-0.4.9+dfsg/.pybuild/cpython3_3.9_unicycler/build/test/test_dependencies.py", line 97, in test_bad_pilon
+ self.assertTrue('Pilon was found' in stderr)
+AssertionError: False is not true
+
+======================================================================
+FAIL: test_bowtie2_build_not_found (test.test_dependencies.TestDependencies)
+----------------------------------------------------------------------
+Traceback (most recent call last):
+ File "/build/unicycler-0.4.9+dfsg/.pybuild/cpython3_3.9_unicycler/build/test/test_dependencies.py", line 64, in test_bowtie2_build_not_found
+ self.assertTrue('could not find bowtie2-build' in stderr)
+AssertionError: False is not true
+
+======================================================================
+FAIL: test_bowtie2_not_found (test.test_dependencies.TestDependencies)
+----------------------------------------------------------------------
+Traceback (most recent call last):
+ File "/build/unicycler-0.4.9+dfsg/.pybuild/cpython3_3.9_unicycler/build/test/test_dependencies.py", line 70, in test_bowtie2_not_found
+ self.assertTrue('could not find bowtie2' in stderr)
+AssertionError: False is not true
+
+======================================================================
+FAIL: test_java_not_found (test.test_dependencies.TestDependencies)
+----------------------------------------------------------------------
+Traceback (most recent call last):
+ File "/build/unicycler-0.4.9+dfsg/.pybuild/cpython3_3.9_unicycler/build/test/test_dependencies.py", line 82, in test_java_not_found
+ self.assertTrue('could not find java' in stderr)
+AssertionError: False is not true
+
+======================================================================
+FAIL: test_makeblastdb_not_found (test.test_dependencies.TestDependencies)
+----------------------------------------------------------------------
+Traceback (most recent call last):
+ File "/build/unicycler-0.4.9+dfsg/.pybuild/cpython3_3.9_unicycler/build/test/test_dependencies.py", line 52, in test_makeblastdb_not_found
+ self.assertTrue('could not find makeblastdb' in stderr)
+AssertionError: False is not true
+
+======================================================================
+FAIL: test_samtools_not_found (test.test_dependencies.TestDependencies)
+----------------------------------------------------------------------
+Traceback (most recent call last):
+ File "/build/unicycler-0.4.9+dfsg/.pybuild/cpython3_3.9_unicycler/build/test/test_dependencies.py", line 76, in test_samtools_not_found
+ self.assertTrue('could not find samtools' in stderr)
+AssertionError: False is not true
+
+======================================================================
+FAIL: test_tblastn_not_found (test.test_dependencies.TestDependencies)
+----------------------------------------------------------------------
+Traceback (most recent call last):
+ File "/build/unicycler-0.4.9+dfsg/.pybuild/cpython3_3.9_unicycler/build/test/test_dependencies.py", line 58, in test_tblastn_not_found
+ self.assertTrue('could not find tblastn' in stderr)
+AssertionError: False is not true
+
+----------------------------------------------------------------------
+Ran 234 tests in 35.163s
+
+FAILED (failures=7)
+
+
-- Nilesh Patra <nilesh at debian.org> Sun, 08 Aug 2021 00:50:46 +0530
unicycler (0.4.8+dfsg-2) unstable; urgency=medium
=====================================
debian/control
=====================================
@@ -4,25 +4,26 @@ Uploaders: Andreas Tille <tille at debian.org>,
Liubov Chuprikova <chuprikovalv at gmail.com>
Section: science
Priority: optional
-Build-Depends: debhelper-compat (= 12),
+Build-Depends: debhelper-compat (= 13),
dh-python,
python3-all,
python3-setuptools,
- default-jdk,
+ default-jdk <!nocheck>,
bcftools,
- bowtie2,
+ bowtie2 <!nocheck>,
miniasm,
- ncbi-blast+,
- pilon,
+ ncbi-blast+ <!nocheck>,
+ pilon <!nocheck>,
racon,
- samtools,
+ samtools <!nocheck>,
spades (>= 3.13.1),
libseqan2-dev,
zlib1g-dev
-Standards-Version: 4.4.1
+Standards-Version: 4.6.0
Vcs-Browser: https://salsa.debian.org/med-team/unicycler
Vcs-Git: https://salsa.debian.org/med-team/unicycler.git
Homepage: https://github.com/rrwick/Unicycler
+Rules-Requires-Root: no
Package: unicycler
Architecture: any
=====================================
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/upstream/metadata
=====================================
@@ -1,3 +1,5 @@
+Bug-Database: https://github.com/rrwick/Unicycler/issues
+Bug-Submit: https://github.com/rrwick/Unicycler/issues/new
Reference:
- Author: >
Ryan R. Wick and Louise M. Judd and Claire L. Gorrie and Kathryn
=====================================
debian/watch
=====================================
@@ -1,4 +1,4 @@
version=4
opts="repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g,repack,compression=xz" \
- https://github.com/rrwick/Unicycler/releases .*/archive/.*/v?@ANY_VERSION@@ARCHIVE_EXT@
+ https://github.com/rrwick/Unicycler/releases .*/.*/v?@ANY_VERSION@@ARCHIVE_EXT@
View it on GitLab: https://salsa.debian.org/med-team/unicycler/-/compare/50a1cc570d350eefe4ebd1fe44137a2c2f520817...064b7adb5e0637a81b790000d56705c2c0e42117
--
View it on GitLab: https://salsa.debian.org/med-team/unicycler/-/compare/50a1cc570d350eefe4ebd1fe44137a2c2f520817...064b7adb5e0637a81b790000d56705c2c0e42117
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