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| author | Ben Woodcroft <donttrustben@gmail.com> | 2017-08-31 09:31:54 +0800 |
|---|---|---|
| committer | Ben Woodcroft <donttrustben@gmail.com> | 2017-08-31 10:43:18 +0800 |
| commit | 690a904ad766dfecf78749d121af528a7a49fa77 (patch) | |
| tree | ef49217529233ca8f8ba3ad5caaa008fd844859d | |
| parent | 2d2e97bd71ac034900e26dd759b106fae0839162 (diff) | |
| download | patches-690a904ad766dfecf78749d121af528a7a49fa77.tar patches-690a904ad766dfecf78749d121af528a7a49fa77.tar.gz | |
gnu: metabat: Update to 2.11.3.
* gnu/packages/bioinformatics.scm (metabat): Update to 2.11.3.
[source]: Use git-fetch. Remove boost-related patch.
* gnu/packages/patches/metabat-fix-boost-issue.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
| -rw-r--r-- | gnu/local.mk | 1 | ||||
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 16 | ||||
| -rw-r--r-- | gnu/packages/patches/metabat-fix-boost-issue.patch | 27 |
3 files changed, 8 insertions, 36 deletions
diff --git a/gnu/local.mk b/gnu/local.mk index 708b50e8b6..1becca3d30 100644 --- a/gnu/local.mk +++ b/gnu/local.mk @@ -841,7 +841,6 @@ dist_patch_DATA = \ %D%/packages/patches/mesa-wayland-egl-symbols-check-mips.patch \ %D%/packages/patches/metabat-remove-compilation-date.patch \ %D%/packages/patches/metabat-fix-compilation.patch \ - %D%/packages/patches/metabat-fix-boost-issue.patch \ %D%/packages/patches/mhash-keygen-test-segfault.patch \ %D%/packages/patches/mingw-w64-5.0rc2-gcc-4.9.3.patch \ %D%/packages/patches/mpc123-initialize-ao.patch \ diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index d0df0ee41a..e3729537bb 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3475,19 +3475,19 @@ form of assemblies or reads.") (define-public metabat (package (name "metabat") - (version "2.11.2") + (version "2.11.3") (source (origin - (method url-fetch) - (uri (string-append "https://bitbucket.org/berkeleylab/metabat/get/v" - version ".tar.gz")) - (file-name (string-append name "-" version ".tar.gz")) + (method git-fetch) + (uri (git-reference + (url "https://bitbucket.org/berkeleylab/metabat.git") + (commit "d0ad65367ffc8e08d1a9dd1388d6170daa047e5c"))) + (file-name (string-append name "-" version "-checkout")) (sha256 (base32 - "0rws9r1ziv6way8cf49jg8bzj7x2131kfqkhj8byf0z5hnrq3bwv")) + "1rlsrkz8iq8xah65222p055kzv5i3szz8bwysnvnh0pv72wvv6ww")) (patches (search-patches "metabat-remove-compilation-date.patch" - "metabat-fix-compilation.patch" - "metabat-fix-boost-issue.patch")))) + "metabat-fix-compilation.patch")))) (build-system gnu-build-system) (arguments `(#:phases diff --git a/gnu/packages/patches/metabat-fix-boost-issue.patch b/gnu/packages/patches/metabat-fix-boost-issue.patch deleted file mode 100644 index 3382d84d66..0000000000 --- a/gnu/packages/patches/metabat-fix-boost-issue.patch +++ /dev/null @@ -1,27 +0,0 @@ -This patch fixes the issue described at -https://bitbucket.org/berkeleylab/metabat/issues/28/compilation-fail-with-boost-164 - -diff --git a/src/metabat.h b/src/metabat.h -index 32ae94c..2292c04 100644 ---- a/src/metabat.h -+++ b/src/metabat.h -@@ -35,6 +35,7 @@ KSEQ_INIT(gzFile, gzread) - - #include <boost/program_options.hpp> - #include <boost/algorithm/string.hpp> -+#include <boost/serialization/array_wrapper.hpp> - #include <boost/numeric/ublas/matrix.hpp> - #include <boost/math/distributions.hpp> - #include <boost/serialization/serialization.hpp> -diff --git a/src/metabat2.h b/src/metabat2.h -index 60a9998..19fa815 100644 ---- a/src/metabat2.h -+++ b/src/metabat2.h -@@ -41,6 +41,7 @@ KSEQ_INIT(gzFile, gzread) - - #include <boost/program_options.hpp> - #include <boost/algorithm/string.hpp> -+#include <boost/serialization/array_wrapper.hpp> - #include <boost/numeric/ublas/matrix.hpp> - #include <boost/numeric/ublas/matrix_sparse.hpp> - #include <boost/numeric/ublas/matrix_proxy.hpp> |