Andreas Tille pushed to branch master at Debian Med / kallisto
Commits:
ae8cabfc by Andreas Tille at 2026-02-22T16:50:32+01:00
Fix test
- - - - -
5c86a3c1 by Andreas Tille at 2026-02-22T16:53:50+01:00
Standards-Version: 4.7.3
- - - - -
29816e22 by Andreas Tille at 2026-02-22T17:01:21+01:00
Do not build in parallel
- - - - -
2aac6e75 by Andreas Tille at 2026-02-22T17:04:32+01:00
Upload to unstable
- - - - -
5 changed files:
- debian/changelog
- debian/control
- debian/patches/more_verbose_output_in_testing.patch →
debian/patches/fix_testing.patch
- debian/patches/series
- debian/rules
Changes:
=====================================
debian/changelog
=====================================
@@ -1,8 +1,8 @@
-kallisto (0.51.1+dfsg-1) UNRELEASED; urgency=medium
+kallisto (0.51.1+dfsg-1) unstable; urgency=medium
[ Andreas Tille ]
* New upstream version
- * Standards-Version: 4.7.2 (routine-update)
+ * Standards-Version: 4.7.3
* Add support for loongarch64 in d/control
Closes: #1057131
* Remove patch Check_busOptions.seq_length_before_accessing.patch that is
@@ -16,6 +16,7 @@ kallisto (0.51.1+dfsg-1) UNRELEASED; urgency=medium
* Try hard to get bifrost build with recent gcc
* bifrost: Add default values for MAX_KMER_SIZE and MAX_GMER_SIZE
* Fix typo in bifrost
+ * Do not build in parallel
[ Michael R. Crusoe ]
* d/control: simplify architecture specifications by using provisions
@@ -25,7 +26,7 @@ kallisto (0.51.1+dfsg-1) UNRELEASED; urgency=medium
* Upstream has forked bifrost, use their copy instead.
* d/rules: need cmake option needed: USE_BAM.
- -- Andreas Tille <[email protected]> Sun, 13 Oct 2024 17:09:54 +0200
+ -- Andreas Tille <[email protected]> Sun, 22 Feb 2026 17:01:24 +0100
kallisto (0.48.0+dfsg-4) unstable; urgency=medium
=====================================
debian/control
=====================================
@@ -1,10 +1,9 @@
Source: kallisto
-Standards-Version: 4.7.2
+Standards-Version: 4.7.3
Maintainer: Debian Med Packaging Team
<[email protected]>
Uploaders:
Andreas Tille <[email protected]>,
Section: science
-Priority: optional
Build-Depends:
debhelper-compat (= 13),
architecture-is-64-bit,
=====================================
debian/patches/more_verbose_output_in_testing.patch →
debian/patches/fix_testing.patch
=====================================
@@ -1,15 +1,15 @@
Author: Andreas Tille <[email protected]>
Last-Update: 2025-10-21
-Description: FIXME: Just for debugging test
+Description: Directly kall kallisto in test
--- a/func_tests/runtests.sh
+++ b/func_tests/runtests.sh
-@@ -231,6 +231,8 @@ cmdexec "$kallisto index --aa -i $test_d
+@@ -231,7 +231,7 @@ cmdexec "$kallisto index --aa -i $test_d
# Test k=7
-+set -x
+-cmdexec "$kallisto index -i $test_dir/basic7.idx -k 7 $test_dir/simple.fasta"
+$kallisto index -i $test_dir/basic7.idx -k 7 $test_dir/simple.fasta
- cmdexec "$kallisto index -i $test_dir/basic7.idx -k 7 $test_dir/simple.fasta"
# Test k=9
+
=====================================
debian/patches/series
=====================================
@@ -7,4 +7,4 @@ fix_bifrost_defines.patch
bifrost_typo.patch
std_gnu17.patch
cmake4.patch
-more_verbose_output_in_testing.patch
+fix_testing.patch
=====================================
debian/rules
=====================================
@@ -1,6 +1,6 @@
#!/usr/bin/make -f
-# DH_VERBOSE := 1
+DH_VERBOSE := 1
export DEB_BUILD_MAINT_OPTIONS=hardening=+all
@@ -9,7 +9,7 @@ CMAKE_EXTRA_FLAGS += -DDEBIAN_BUILD=1 \
-DBUILD_FUNCTESTING=1 -DUSE_BAM=1
%:
- dh $@
+ dh $@ --no-parallel
override_dh_auto_clean:
dh_auto_clean
View it on GitLab:
https://salsa.debian.org/med-team/kallisto/-/compare/a756bc394a0ba520c40a27dc44d892afe5aaf118...2aac6e756307a19ae4c15f69d28d68a08c846dec
--
View it on GitLab:
https://salsa.debian.org/med-team/kallisto/-/compare/a756bc394a0ba520c40a27dc44d892afe5aaf118...2aac6e756307a19ae4c15f69d28d68a08c846dec
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