[med-svn] [Git][med-team/sra-sdk][master] 3 commits: Limit libngs-java to those architectures where libs are available

Andreas Tille (@tille) gitlab at salsa.debian.org
Fri Feb 24 11:02:31 GMT 2023 


Andreas Tille pushed to branch master at Debian Med / sra-sdk


Commits:
766012ab by Andreas Tille at 2023-02-24T09:56:23+01:00
Limit libngs-java to those architectures where libs are available

- - - - -
ac7b91ce by Andreas Tille at 2023-02-24T11:52:19+01:00
DEP3

- - - - -
9ef7f1d7 by Andreas Tille at 2023-02-24T12:01:24+01:00
Upload to unstable

- - - - -


16 changed files:

- debian/changelog
- debian/control
- debian/patches/find_ncbi-vdb-interfaces.patch
- debian/patches/fix_javadoc_build.patch
- debian/patches/fix_ngs-c++-underlinkage.patch
- debian/patches/label_online_tests.patch
- debian/patches/link_magic_dynamically.patch
- debian/patches/link_vdb_dynamically.patch
- debian/patches/no_sse4.2.patch
- debian/patches/prefer_dynamic_libraries.patch
- debian/patches/reenable_legacy_schema_in_sra_load.patch
- debian/patches/use_c_locale_for_comma.patch
- debian/patches/use_debian_packaged_compression_libs.patch
- debian/patches/use_debian_packaged_re2.patch
- debian/patches/use_soversions.patch
- debian/patches/use_stock_magic.patch


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,11 @@
+sra-sdk (3.0.3+dfsg-5) unstable; urgency=medium
+
+  * Limit libngs-java to those architectures where libs are available
+    Closes: #1031853
+  * DEP3 for all patches
+
+ -- Andreas Tille <tille at debian.org>  Fri, 24 Feb 2023 11:52:27 +0100
+
 sra-sdk (3.0.3+dfsg-4) unstable; urgency=medium
 
   * debian/rules: Explicitly build with signed characters (-fsigned-char).


=====================================
debian/control
=====================================
@@ -164,8 +164,8 @@ Description: Next Generation Sequencing language Bindings (C++ development)
  This is the full development package.
 
 Package: libngs-java
-Multi-Arch: foreign
-Architecture: all
+Multi-Arch: same
+Architecture: amd64 arm64
 Section: java
 Depends: ${java:Depends},
          ${misc:Depends},


=====================================
debian/patches/find_ncbi-vdb-interfaces.patch
=====================================
@@ -1,3 +1,8 @@
+Author: Andreas Tille <tille at debian.org>
+        Aaron M. Ucko <ucko at debian.org>
+Last-Update: 2023-01-15 20:56:15 -0500
+Description: Find ncbi vdb at Debian location
+
 --- a/CMakeLists.txt
 +++ b/CMakeLists.txt
 @@ -54,8 +54,8 @@ set(CMAKE_MODULE_PATH


=====================================
debian/patches/fix_javadoc_build.patch
=====================================
@@ -1,3 +1,8 @@
+Author: Andreas Tille <tille at debian.org>
+        Aaron M. Ucko <ucko at debian.org>
+Last-Update: 2023-01-15 20:56:15
+Description: Make sure javadoc builds properly
+
 Index: b/ngs/ngs-java/CMakeLists.txt
 ===================================================================
 --- a/ngs/ngs-java/CMakeLists.txt


=====================================
debian/patches/fix_ngs-c++-underlinkage.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2023-01-20 17:48:36
+Description: Fix linking target
+
 Index: b/ngs/ngs-sdk/CMakeLists.txt
 ===================================================================
 --- a/ngs/ngs-sdk/CMakeLists.txt


=====================================
debian/patches/label_online_tests.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2023-01-15 20:56:15
+Description: Label tests "online" to have an easy option to run/ignore them properly
+
 Index: b/ngs/ngs-sdk/examples/CMakeLists.txt
 ===================================================================
 --- a/ngs/ngs-sdk/examples/CMakeLists.txt


=====================================
debian/patches/link_magic_dynamically.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2023-01-15 20:56:15
+Description: link magic dynamically
+
 Index: b/tools/copycat/CMakeLists.txt
 ===================================================================
 --- a/tools/copycat/CMakeLists.txt


=====================================
debian/patches/link_vdb_dynamically.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2023-01-15 20:56:15
+Description: link vdb dynamically
+
 Index: b/build/env.cmake
 ===================================================================
 --- a/build/env.cmake


=====================================
debian/patches/no_sse4.2.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2023-01-22 13:16:48
+Description: Fulfill baseline requirement
+
 Index: b/test/loaders/sharq/CMakeLists.txt
 ===================================================================
 --- a/test/loaders/sharq/CMakeLists.txt


=====================================
debian/patches/prefer_dynamic_libraries.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2023-01-18 22:47:05
+Description: prefer dynamic libraries
+
 --- a/build/env.cmake
 +++ b/build/env.cmake
 @@ -523,9 +523,9 @@ endfunction()


=====================================
debian/patches/reenable_legacy_schema_in_sra_load.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2023-01-18 22:47:05
+Description: reenable legacy schema in sra load
+
 --- a/tools/sra-load/loader.c
 +++ b/tools/sra-load/loader.c
 @@ -38,6 +38,7 @@


=====================================
debian/patches/use_c_locale_for_comma.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2023-01-22 13:15:28
+Description: use C locale for comma
+
 Index: b/tools/loaders/bam-loader/loader-imp.c
 ===================================================================
 --- a/tools/loaders/bam-loader/loader-imp.c


=====================================
debian/patches/use_debian_packaged_compression_libs.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2023-01-15 20:56:15
+Description: use Debian packaged compression libs
+
 Index: b/tools/loaders/bam-loader/CMakeLists.txt
 ===================================================================
 --- a/tools/loaders/bam-loader/CMakeLists.txt


=====================================
debian/patches/use_debian_packaged_re2.patch
=====================================
@@ -1,3 +1,8 @@
+Author: Andreas Tille <tille at debian.org>
+        Aaron M. Ucko <ucko at debian.org>
+Last-Update: 2023-01-15 20:56:15
+Description: use Debian packaged re2
+
 Index: b/tools/loaders/sharq/CMakeLists.txt
 ===================================================================
 --- a/tools/loaders/sharq/CMakeLists.txt


=====================================
debian/patches/use_soversions.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2022-10-10 22:25:50
+Description: use soversions
+
 --- a/ngs/ngs-python/ngs/LibManager.py
 +++ b/ngs/ngs-python/ngs/LibManager.py
 @@ -211,9 +211,9 @@ class LibManager:


=====================================
debian/patches/use_stock_magic.patch
=====================================
@@ -1,3 +1,7 @@
+Author: Aaron M. Ucko
+Last-Update: 2022-10-16 22:33:37
+Description: Use Debian packaged magic
+
 --- a/tools/copycat/ccfileformat.c
 +++ b/tools/copycat/ccfileformat.c
 @@ -189,9 +189,11 @@ rc_t CCFileFormatMake (CCFileFormat ** p



View it on GitLab: https://salsa.debian.org/med-team/sra-sdk/-/compare/4a2246e923dff0b1dc93bbacdc55b37613849b17...9ef7f1d704210058b51a8510d6accbd065c99a86

-- 
View it on GitLab: https://salsa.debian.org/med-team/sra-sdk/-/compare/4a2246e923dff0b1dc93bbacdc55b37613849b17...9ef7f1d704210058b51a8510d6accbd065c99a86
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