[med-svn] [Git][med-team/abyss][master] 5 commits: Specify Bloom filter size to fix autopkgtest

[Andreas Tille (@tille)]

Andreas Tille pushed to branch master at Debian Med / abyss


Commits:
6fb141b8 by Andreas Tille at 2021-11-16T08:07:28+01:00
Specify Bloom filter size to fix autopkgtest

- - - - -
e44e6ce5 by Andreas Tille at 2021-11-16T08:11:17+01:00
Use gzipped data files in source package

- - - - -
2c01f71e by Andreas Tille at 2021-11-16T08:16:56+01:00
Upload to unstable

- - - - -
fa6c32f8 by Andreas Tille at 2022-01-14T08:48:21+01:00
Upstream declares that only 64bit architectures are supported
    (https://github.com/bcgsc/abyss/issues/384) thus restricting
    architectures accordingly

- - - - -
b830691c by Andreas Tille at 2022-01-14T08:49:39+01:00
Exclude i386 from salsa-ci

- - - - -


9 changed files:

- debian/changelog
- debian/control
- debian/salsa-ci.yml
- + debian/source/include-binaries
- debian/tests/run-unit-test
- − debian/tests/test-data/reads1.fastq
- + debian/tests/test-data/reads1.fastq.gz
- − debian/tests/test-data/reads2.fastq
- + debian/tests/test-data/reads2.fastq.gz


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,20 @@
+abyss (2.3.3-3) UNRELEASED; urgency=medium
+
+  * Upstream declares that only 64bit architectures are supported
+    (https://github.com/bcgsc/abyss/issues/384) thus restricting
+    architectures accordingly
+    Closes: #1000577
+  * Exclude i386 from salsa-ci
+
+ -- Andreas Tille <tille at debian.org>  Fri, 14 Jan 2022 08:47:17 +0100
+
+abyss (2.3.3-2) unstable; urgency=medium
+
+  * Fix autopkgtest
+  * Use gzipped data files in source package
+
+ -- Andreas Tille <tille at debian.org>  Tue, 16 Nov 2021 08:11:26 +0100
+
 abyss (2.3.3-1) unstable; urgency=medium
 
   * No need to exclude files any more


=====================================
debian/control
=====================================
@@ -19,7 +19,7 @@ Homepage: https://github.com/bcgsc/abyss
 Rules-Requires-Root: no
 
 Package: abyss
-Architecture: any-amd64 arm64 armel armhf any-i386 mips64el mipsel ppc64el s390x alpha ia64 m68k powerpcspe ppc64 riscv64 sh4 sparc64 x32
+Architecture: any-amd64 arm64 mips64el ppc64el s390x ia64 ppc64 riscv64 sparc64 alpha
 Depends: make,
          ${shlibs:Depends},
          ${misc:Depends},


=====================================
debian/salsa-ci.yml
=====================================
@@ -2,3 +2,7 @@
 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
+
+# i386 is explicitly excluded
+variables:
+  SALSA_CI_DISABLE_BUILD_PACKAGE_I386: 1


=====================================
debian/source/include-binaries
=====================================
@@ -0,0 +1,2 @@
+debian/tests/test-data/reads1.fastq.gz
+debian/tests/test-data/reads2.fastq.gz


=====================================
debian/tests/run-unit-test
=====================================
@@ -15,7 +15,7 @@ cd "${AUTOPKGTEST_TMP}"
 cp -a /usr/share/doc/${pkg}/test-data/ .
 gunzip -r ./*
 
-abyss-pe k=25 name=test in='test-data/reads1.fastq test-data/reads2.fastq'
+abyss-pe B=1G k=25 name=test in='test-data/reads1.fastq test-data/reads2.fastq'
 
 # It is okay if the echo comman can't respect "-n" and includes a newline
 # shellcheck disable=SC2039


=====================================
debian/tests/test-data/reads1.fastq deleted
=====================================
The diff for this file was not included because it is too large.

=====================================
debian/tests/test-data/reads1.fastq.gz
=====================================
Binary files /dev/null and b/debian/tests/test-data/reads1.fastq.gz differ


=====================================
debian/tests/test-data/reads2.fastq deleted
=====================================
The diff for this file was not included because it is too large.

=====================================
debian/tests/test-data/reads2.fastq.gz
=====================================
Binary files /dev/null and b/debian/tests/test-data/reads2.fastq.gz differ



View it on GitLab: https://salsa.debian.org/med-team/abyss/-/compare/9cf950a9a71ebbdb514f7bf3fa92e48c0291e5a3...b830691c6e69bcc569652d714029abdcd9506e2f

-- 
View it on GitLab: https://salsa.debian.org/med-team/abyss/-/compare/9cf950a9a71ebbdb514f7bf3fa92e48c0291e5a3...b830691c6e69bcc569652d714029abdcd9506e2f
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