Étienne Mollier pushed to branch master at Debian Med / lighter
Commits: ded63b6f by Étienne Mollier at 2024-11-09T20:01:07+01:00 New upstream version 1.1.3 - - - - - 1c5785d2 by Étienne Mollier at 2024-11-09T20:01:19+01:00 Update upstream source from tag 'upstream/1.1.3' Update to upstream version '1.1.3' with Debian dir af46b8826c02a4abf38ebfde983dfcf9d962488a - - - - - c859c52e by Étienne Mollier at 2024-11-09T20:09:41+01:00 ftbfs.patch: unfuzz. - - - - - 3297e2c2 by Étienne Mollier at 2024-11-09T20:10:24+01:00 d/control: declare compliance to standards version 4.7.0. - - - - - f1302a48 by Étienne Mollier at 2024-11-09T20:11:29+01:00 d/changelog: ready for upload to unstable. - - - - - 4 changed files: - debian/changelog - debian/control - debian/patches/ftbfs.patch - main.cpp Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,11 @@ +lighter (1.1.3-1) unstable; urgency=medium + + * New upstream version 1.1.3 + * ftbfs.patch: unfuzz. + * d/control: declare compliance to standards version 4.7.0. + + -- Étienne Mollier <[email protected]> Sat, 09 Nov 2024 20:11:20 +0100 + lighter (1.1.2-7) unstable; urgency=medium * Fix watch file ===================================== debian/control ===================================== @@ -5,7 +5,7 @@ Section: science Priority: optional Build-Depends: debhelper-compat (= 13), zlib1g-dev -Standards-Version: 4.6.1 +Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/lighter Vcs-Git: https://salsa.debian.org/med-team/lighter.git Homepage: https://github.com/mourisl/Lighter ===================================== debian/patches/ftbfs.patch ===================================== @@ -11,19 +11,19 @@ Description: lighter fails to build from source, because: and 3). A very simple fix is using signed char (which isn't architecture dependent). ---- lighter-1.1.2.orig/main.cpp -+++ lighter-1.1.2/main.cpp +--- lighter.orig/main.cpp ++++ lighter/main.cpp @@ -20,7 +20,7 @@ - char LIGHTER_VERSION[] = "Lighter v1.1.2" ; + char LIGHTER_VERSION[] = "Lighter v1.1.3" ; -char nucToNum[26] = { 0, -1, 1, -1, -1, -1, 2, +signed char nucToNum[26] = { 0, -1, 1, -1, -1, -1, 2, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, 3, -1, -1, -1, -1, -1, -1 } ; ---- lighter-1.1.2.orig/KmerCode.h -+++ lighter-1.1.2/KmerCode.h +--- lighter.orig/KmerCode.h ++++ lighter/KmerCode.h @@ -4,7 +4,7 @@ #include <stdio.h> #include "utils.h" @@ -33,8 +33,8 @@ Description: lighter fails to build from source, because: extern char numToNuc[26] ; const int K_BLOCK_NUM = ( MAX_KMER_LENGTH - 1 ) / ( sizeof( uint64_t ) * 4 ) + 1 ; ---- lighter-1.1.2.orig/ErrorCorrection.cpp -+++ lighter-1.1.2/ErrorCorrection.cpp +--- lighter.orig/ErrorCorrection.cpp ++++ lighter/ErrorCorrection.cpp @@ -3,7 +3,7 @@ //#define DEBUG ===================================== main.cpp ===================================== @@ -18,7 +18,7 @@ #include "pthread.h" -char LIGHTER_VERSION[] = "Lighter v1.1.2" ; +char LIGHTER_VERSION[] = "Lighter v1.1.3" ; char nucToNum[26] = { 0, -1, 1, -1, -1, -1, 2, -1, -1, -1, -1, -1, -1, -1, @@ -375,6 +375,16 @@ int main( int argc, char *argv[] ) } else if ( !strcmp( "-od", argv[i] ) ) { + int j ; + for (j = 0 ; argv[i + 1][j] ; ++j) + { + if (argv[i + 1][j] == '/') + { + argv[i + 1][j] = '\0' ; + mkdir( argv[i + 1], 0700 ) ; + argv[i + 1][j] = '/' ; + } + } mkdir( argv[i + 1], 0700 ) ; reads.SetOutputDirectory( argv[i + 1] ) ; ++i ; View it on GitLab: https://salsa.debian.org/med-team/lighter/-/compare/1987ec6b2caf26262955822fa2e68d28a5324523...f1302a489250637ece0f4fcc2701ce16b2fb0c36 -- View it on GitLab: https://salsa.debian.org/med-team/lighter/-/compare/1987ec6b2caf26262955822fa2e68d28a5324523...f1302a489250637ece0f4fcc2701ce16b2fb0c36 You're receiving this email because of your account on salsa.debian.org.
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