[med-svn] [Git][med-team/fermi-lite][master] 10 commits: Cleanup after testing Closes: #1044647

Andreas Tille (@tille) gitlab at salsa.debian.org
Sat Dec 14 18:50:11 GMT 2024



Andreas Tille pushed to branch master at Debian Med / fermi-lite


Commits:
c7246b0b by Andreas Tille at 2024-12-14T18:55:28+01:00
Cleanup after testing Closes: #1044647

- - - - -
e87ca963 by Andreas Tille at 2024-12-14T18:56:57+01:00
Fix watchfile to detect new versions on github (routine-update)

- - - - -
281aa425 by Andreas Tille at 2024-12-14T18:56:59+01:00
New upstream version 0.1+git20221215.85f159e
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20295f6a by Andreas Tille at 2024-12-14T18:56:59+01:00
New upstream version

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7d02bc00 by Andreas Tille at 2024-12-14T18:56:59+01:00
Update upstream source from tag 'upstream/0.1+git20221215.85f159e'

Update to upstream version '0.1+git20221215.85f159e'
with Debian dir ec56dad55f7c37e4a3405d12bf94f912c525bc47
- - - - -
e900109e by Andreas Tille at 2024-12-14T18:57:00+01:00
Standards-Version: 4.7.0 (routine-update)

- - - - -
c1d6b09d by Andreas Tille at 2024-12-14T19:00:02+01:00
Refresh patches

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82f58aad by Andreas Tille at 2024-12-14T19:03:41+01:00
Update symbols

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297fdc8d by Andreas Tille at 2024-12-14T19:13:26+01:00
Do not move header files away from source repository

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22b5d090 by Andreas Tille at 2024-12-14T19:48:21+01:00
Upload to unstable

- - - - -


9 changed files:

- debian/changelog
- debian/control
- + debian/libfml-dev.install
- debian/libfml0.symbols
- − debian/patches/gcc10.patch
- debian/patches/series
- debian/rules
- debian/watch
- rle.h


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,16 @@
+fermi-lite (0.1+git20221215.85f159e-1) unstable; urgency=medium
+
+  * Team upload.
+  * New upstream version
+  * Cleanup after testing
+    Closes: #1044647
+  * Fix watchfile to detect new versions on github (routine-update)
+  * Standards-Version: 4.7.0 (routine-update)
+  * Do not move header files away from source repository
+    Closes: #1049564
+
+ -- Andreas Tille <tille at debian.org>  Sat, 14 Dec 2024 19:47:40 +0100
+
 fermi-lite (0.1+git20190320.b499514-1) unstable; urgency=medium
 
   [ Michael R. Crusoe ]


=====================================
debian/control
=====================================
@@ -8,7 +8,7 @@ Build-Depends: debhelper-compat (= 13),
                zlib1g-dev,
                libsimde-dev,
                help2man
-Standards-Version: 4.5.1
+Standards-Version: 4.7.0
 Vcs-Browser: https://salsa.debian.org/med-team/fermi-lite
 Vcs-Git: https://salsa.debian.org/med-team/fermi-lite.git
 Homepage: https://github.com/lh3/fermi-lite


=====================================
debian/libfml-dev.install
=====================================
@@ -0,0 +1,8 @@
+fml.h		/usr/include
+bfc.h		/usr/include/fml
+htab.h		/usr/include/fml
+kmer.h		/usr/include/fml
+internal.h	/usr/include/fml
+khash.h		/usr/include/fml
+kvec.h		/usr/include/fml
+ksort.h		/usr/include/fml


=====================================
debian/libfml0.symbols
=====================================
@@ -18,6 +18,7 @@ libfml.so.0 libfml0 #MINVER#
  fm6_get_nei at Base 0.1
  fm6_is_contained at Base 0.1
  fm6_retrieve at Base 0.1
+ fm_verbose at Base 0.1+git20221215.85f159e
  fml_assemble at Base 0.1
  fml_correct at Base 0.1
  fml_correct_core at Base 0.1
@@ -36,6 +37,7 @@ libfml.so.0 libfml0 #MINVER#
  fml_seq_read at Base 0.1
  fml_utg_destroy at Base 0.1
  fml_utg_print at Base 0.1
+ fml_utg_print_gfa at Base 0.1+git20221215.85f159e
  g_defr at Base 0.1
  g_trinull at Base 0.1
  kh_clear_64 at Base 0.1


=====================================
debian/patches/gcc10.patch deleted
=====================================
@@ -1,16 +0,0 @@
-Description: Fix package to build with GCC-10
-Bug-Debian: https://bugs.debian.org/957198
-Author: Nilesh Patra <npatra974 at gmail.com>
-Last-Update: Sat, 18 Apr 2020 22:55:21 +0530
-
---- a/rle.h
-+++ b/rle.h
-@@ -30,7 +30,7 @@
-  *** 43+3 codec ***
-  ******************/
- 
--const uint8_t rle_auxtab[8];
-+extern const uint8_t rle_auxtab[8];
- 
- #define RLE_MIN_SPACE 18
- #define rle_nptr(block) ((uint16_t*)(block))


=====================================
debian/patches/series
=====================================
@@ -5,4 +5,3 @@ bcf_seqlib.patch
 simde
 ensure-signed-comparison.patch
 sync_instead_of_atomic
-gcc10.patch


=====================================
debian/rules
=====================================
@@ -20,14 +20,6 @@ override_dh_auto_install:
 	d-shlibmove --commit \
                     --multiarch \
                     --devunversioned \
-                    --movedev "fml.h" /usr/include/ \
-                    --movedev "bfc.h"  /usr/include/fml \
-                    --movedev "htab.h" /usr/include/fml \
-                    --movedev "kmer.h"  /usr/include/fml \
-                    --movedev "internal.h" /usr/include/fml \
-                    --movedev "khash.h" /usr/include/fml \
-                    --movedev "kvec.h" /usr/include/fml \
-                    --movedev "ksort.h" /usr/include/fml \
                     libfml.so
 
 override_dh_installman:
@@ -40,4 +32,5 @@ override_dh_auto_test:
 ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
 	./fml-asm test/MT-simu.fq.gz > MT.fq
 	test "$$(wc -l < MT.fq)" = "4"
+	rm -f MT.fq
 endif


=====================================
debian/watch
=====================================
@@ -3,5 +3,5 @@ version=4
 opts="mode=git,pretty=0.1+git%cd.%h" \
     https://github.com/lh3/fermi-lite.git HEAD
 
-#https://github.com/lh3/fermi-lite/releases .*/archive/v(\d[\d.-]+)\.(?:tar(?:\.gz|\.bz2)?|tgz)
+#https://github.com/lh3/fermi-lite/releases .*/v(\d[\d.-]+)\.(?:tar(?:\.gz|\.bz2)?|tgz)
 


=====================================
rle.h
=====================================
@@ -30,7 +30,7 @@ extern "C" {
  *** 43+3 codec ***
  ******************/
 
-const uint8_t rle_auxtab[8];
+extern const uint8_t rle_auxtab[8];
 
 #define RLE_MIN_SPACE 18
 #define rle_nptr(block) ((uint16_t*)(block))



View it on GitLab: https://salsa.debian.org/med-team/fermi-lite/-/compare/4fc0252b48bc52ed742fa2fccc5258e1eef08f0f...22b5d0908f561890ab2a27c98bad90999feafbc2

-- 
View it on GitLab: https://salsa.debian.org/med-team/fermi-lite/-/compare/4fc0252b48bc52ed742fa2fccc5258e1eef08f0f...22b5d0908f561890ab2a27c98bad90999feafbc2
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