Michael R. Crusoe pushed to branch master at Debian Med / hisat2
Commits: 4ef97c9b by Michael R. Crusoe at 2021-01-27T16:55:24+01:00 debian/patches/riscv5: fix compilation on riscv5 - - - - - b3a001b6 by Michael R. Crusoe at 2021-01-27T17:34:03+01:00 routine-update: Standards-Version: 4.5.1 - - - - - 5c4b14b9 by Michael R. Crusoe at 2021-01-27T17:34:32+01:00 routine-update: Ready to upload to unstable - - - - - 4 changed files: - debian/changelog - debian/control - + debian/patches/riscv5 - debian/patches/series Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,10 @@ +hisat2 (2.2.1-2) unstable; urgency=medium + + * debian/patches/riscv5: fix compilation on riscv5 + * Standards-Version: 4.5.1 (routine-update) + + -- Michael R. Crusoe <[email protected]> Wed, 27 Jan 2021 17:34:32 +0100 + hisat2 (2.2.1-1) unstable; urgency=medium [ Steffen Moeller ] ===================================== debian/control ===================================== @@ -8,7 +8,7 @@ Build-Depends: debhelper-compat (= 13), help2man <!nodoc>, pandoc <!nodoc>, python3:any <!nodoc> -Standards-Version: 4.5.0 +Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/hisat2 Vcs-Git: https://salsa.debian.org/med-team/hisat2.git Homepage: https://daehwankimlab.github.io/hisat2/ ===================================== debian/patches/riscv5 ===================================== @@ -0,0 +1,35 @@ +From: Michael R. Crusoe <[email protected]> +Subject: Fix compilation on riscv5 +--- hisat2.orig/alphabet.cpp ++++ hisat2/alphabet.cpp +@@ -400,7 +400,7 @@ + + const char *iupacs = "!ACMGRSVTWYHKDBN!acmgrsvtwyhkdbn"; + +-char mask2iupac[16] = { ++int mask2iupac[16] = { + -1, + 'A', // 0001 + 'C', // 0010 +--- hisat2.orig/alphabet.h ++++ hisat2/alphabet.h +@@ -65,7 +65,7 @@ + /// corresponding 2-bit nucleotide + extern uint8_t nuccol2nuc[5][5]; + /// Convert a 4-bit mask into an IUPAC code +-extern char mask2iupac[16]; ++extern int mask2iupac[16]; + + /// Convert an ascii color to an ascii dna char + extern char col2dna[]; +--- hisat2.orig/sstring.h ++++ hisat2/sstring.h +@@ -3326,7 +3326,7 @@ + */ + char toChar(size_t idx) const { + assert_range((int)this->cs_[idx], 0, 15); +- return mask2iupac[(int)this->cs_[idx]]; ++ return (char)mask2iupac[(int)this->cs_[idx]]; + } + + /** ===================================== debian/patches/series ===================================== @@ -5,3 +5,4 @@ compilerflags simde python3 fix-manual +riscv5 View it on GitLab: https://salsa.debian.org/med-team/hisat2/-/compare/ef149b86ac639fd8bafcd909f62ad912a8124e1a...5c4b14b9b0cbab8d6667ac3848219e7942101290 -- View it on GitLab: https://salsa.debian.org/med-team/hisat2/-/compare/ef149b86ac639fd8bafcd909f62ad912a8124e1a...5c4b14b9b0cbab8d6667ac3848219e7942101290 You're receiving this email because of your account on salsa.debian.org.
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