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| author | Jen Herting <jen@herting.cc> | 2020-08-04 17:52:51 -0400 |
|---|---|---|
| committer | GitHub <noreply@github.com> | 2020-08-04 14:52:51 -0700 |
| commit | 118948cb0abd78cfca59799a48454a4cd9525a78 (patch) | |
| tree | 83e31c09bcaadc2d9113c8322bc216c001cd02e5 /var | |
| parent | f9ee76a817408a52505caa8e1291e9da0aeafbf9 (diff) | |
| download | spack-118948cb0abd78cfca59799a48454a4cd9525a78.tar.gz spack-118948cb0abd78cfca59799a48454a4cd9525a78.tar.bz2 spack-118948cb0abd78cfca59799a48454a4cd9525a78.tar.xz spack-118948cb0abd78cfca59799a48454a4cd9525a78.zip | |
[bowtie] added version 1.3.0. Patch fixed for new version (#17744)
Diffstat (limited to 'var')
| -rw-r--r-- | var/spack/repos/builtin/packages/bowtie/fix_narrowing_err_1.3.0.patch | 11 | ||||
| -rw-r--r-- | var/spack/repos/builtin/packages/bowtie/package.py | 4 |
2 files changed, 14 insertions, 1 deletions
diff --git a/var/spack/repos/builtin/packages/bowtie/fix_narrowing_err_1.3.0.patch b/var/spack/repos/builtin/packages/bowtie/fix_narrowing_err_1.3.0.patch new file mode 100644 index 0000000000..0da7fe0de3 --- /dev/null +++ b/var/spack/repos/builtin/packages/bowtie/fix_narrowing_err_1.3.0.patch @@ -0,0 +1,11 @@ +--- a/alphabet.cpp 2020-07-28 15:02:56.137635525 -0400 ++++ b/alphabet.cpp 2020-07-28 15:05:32.385589360 -0400 +@@ -274,7 +274,7 @@ + const char *iupacs = "!ACMGRSVTWYHKDBN!acmgrsvtwyhkdbn"; + + signed char mask2iupac[16] = { +- -1, ++ static_cast<char>(-1), + 'A', // 0001 + 'C', // 0010 + 'M', // 0011 diff --git a/var/spack/repos/builtin/packages/bowtie/package.py b/var/spack/repos/builtin/packages/bowtie/package.py index ce7f8b03a0..737ae8c893 100644 --- a/var/spack/repos/builtin/packages/bowtie/package.py +++ b/var/spack/repos/builtin/packages/bowtie/package.py @@ -13,6 +13,7 @@ class Bowtie(MakefilePackage): homepage = "https://sourceforge.net/projects/bowtie-bio/" url = "https://github.com/BenLangmead/bowtie/archive/v1.2.0.tar.gz" + version('1.3.0', sha256='d7c2d982a67884909f284a0ff150b56b20127cd7a1ced461c3c4c03e6a6374c5') version('1.2.3', sha256='86402114caeacbb3a3030509cb59f0b7e96361c7b3ee2dd50e2cd68200898823') # The bowtie project git tagged and GitHub released a v1.2.2, # discovered/fixed a bug, git tagged a v1.2.2_p1 and moved the @@ -50,7 +51,8 @@ class Bowtie(MakefilePackage): patch('for_aarch64.patch', when='target=aarch64:') # measures for narrowing error - patch('fix_narrowing_err.patch') + patch('fix_narrowing_err.patch', when='@:1.2.3') + patch('fix_narrowing_err_1.3.0.patch', when='@1.3.0:') def edit(self, spec, prefix): makefile = FileFilter('Makefile') |