diff options
| -rw-r--r-- | gnu-system.am | 1 | ||||
| -rw-r--r-- | gnu/packages/julia.scm | 101 | ||||
| -rw-r--r-- | gnu/packages/patches/julia-0.3.10-fix-empty-array.patch | 13 |
3 files changed, 69 insertions, 46 deletions
diff --git a/gnu-system.am b/gnu-system.am index c0f8fac1ab..6626cd9d4b 100644 --- a/gnu-system.am +++ b/gnu-system.am @@ -519,7 +519,6 @@ dist_patch_DATA = \ gnu/packages/patches/irrlicht-mesa-10.patch \ gnu/packages/patches/jasper-CVE-2008-3522.patch \ gnu/packages/patches/jbig2dec-ignore-testtest.patch \ - gnu/packages/patches/julia-0.3.10-fix-empty-array.patch \ gnu/packages/patches/kmod-module-directory.patch \ gnu/packages/patches/lftp-dont-save-unknown-host-fingerprint.patch \ gnu/packages/patches/liba52-enable-pic.patch \ diff --git a/gnu/packages/julia.scm b/gnu/packages/julia.scm index 5885eb0268..7c7b53e6c0 100644 --- a/gnu/packages/julia.scm +++ b/gnu/packages/julia.scm @@ -39,6 +39,7 @@ #:use-module (gnu packages python) #:use-module (gnu packages textutils) #:use-module (gnu packages version-control) + #:use-module (gnu packages wget) #:use-module (ice-9 match)) (define libuv-julia @@ -67,16 +68,15 @@ (define-public julia (package (name "julia") - (version "0.3.10") + (version "0.4.2") (source (origin (method url-fetch) (uri (string-append "https://github.com/JuliaLang/julia/releases/download/v" - version "/julia-" version "_c8ceeefcc1.tar.gz")) + version "/julia-" version "-full.tar.gz")) (sha256 (base32 - "0j6mw6wr35lxid10nh9gz7k6wck3a90ic92w99n1r052325gl9r7")) - (patches (list (search-patch "julia-0.3.10-fix-empty-array.patch"))))) + "0sikirixvryf8z3d0skig22fpip64jk001qsha98iwsrcfiqpyds")))) (build-system gnu-build-system) (arguments `(#:test-target "test" @@ -92,8 +92,7 @@ #:phases (modify-phases %standard-phases (delete 'configure) - (add-after - 'unpack 'hardcode-soname-map + (add-after 'unpack 'hardcode-soname-map ;; ./src/ccall.cpp creates a map from library names to paths using the ;; output of "/sbin/ldconfig -p". Since ldconfig is not used in Guix, ;; we patch ccall.cpp to contain a static map. @@ -108,46 +107,70 @@ "sonameMap[\"" libname "\"] = " "\"" (assoc-ref inputs input) "/lib/" soname "\";"))) '(("libc" "libc" "libc.so.6") - ("pcre" "libpcre" "libpcre.so") + ("pcre2" "libpcre2-8" "libpcre2-8.so") ("mpfr" "libmpfr" "libmpfr.so") ("openblas" "libblas" "libopenblas.so") ("arpack-ng" "libarpack" "libarpack.so") ("lapack" "liblapack" "liblapack.so") + ("libgit2" "libgit2" "libgit2.so") ("gmp" "libgmp" "libgmp.so") ("openlibm" "libopenlibm" "libopenlibm.so") ("openspecfun" "libopenspecfun" "libopenspecfun.so") ("fftw" "libfftw3" "libfftw3.so") ("fftwf" "libfftw3f" "libfftw3f.so")))))) #t)) - ;; This phase will no longer be necessary in 0.3.11; see - ;; https://github.com/JuliaLang/julia/issues/12028 - (add-before - 'build 'fix-building-with-mcjit-llvm - (lambda _ - (substitute* "src/cgutils.cpp" - (("addComdat\\(gv\\);") "")) - #t)) - (add-before - 'build 'patch-include-path - (lambda _ + (add-before 'build 'fix-include-and-link-paths + (lambda* (#:key inputs #:allow-other-keys) + ;; LIBUTF8PROC is a linker flag, not a build target. It is + ;; included in the LIBFILES_* variable which is used as a + ;; collection of build targets and a list of libraries to link + ;; against. + (substitute* "src/flisp/Makefile" + (("\\$\\(BUILDDIR\\)/\\$\\(EXENAME\\): \\$\\(OBJS\\) \\$\\(LIBFILES_release\\)") + "$(BUILDDIR)/$(EXENAME): $(OBJS) $(LLT_release)") + (("\\$\\(BUILDDIR\\)/\\$\\(EXENAME\\)-debug: \\$\\(DOBJS\\) \\$\\(LIBFILES_debug\\)") + "$(BUILDDIR)/$(EXENAME)-debug: $(DOBJS) $(LLT_debug)")) + + ;; The REPL must be linked with libuv. + (substitute* "ui/Makefile" + (("JLDFLAGS \\+= ") + (string-append "JLDFLAGS += " + (assoc-ref %build-inputs "libuv") + "/lib/libuv.so "))) + (substitute* "deps/Makefile" (("/usr/include/double-conversion") (string-append (assoc-ref %build-inputs "double-conversion") "/include/double-conversion"))) + (substitute* "base/Makefile" + (("\\$\\(build_includedir\\)/uv-errno.h") + (string-append (assoc-ref inputs "libuv") + "/include/uv-errno.h"))) #t)) - (add-before - 'build 'replace-default-shell + (add-before 'build 'replace-default-shell (lambda _ (substitute* "base/client.jl" (("/bin/sh") (which "sh"))) #t)) - (add-before - 'check 'disable-broken-test - ;; One test fails because it produces slightly different output. - (lambda _ - (substitute* "test/repl.jl" - (("@test output") "# @test output")) - #t))) + (add-after 'unpack 'hardcode-paths + (lambda _ + (substitute* "base/interactiveutil.jl" + (("`which") (string-append "`" (which "which"))) + (("`wget") (string-append "`" (which "wget")))) + #t)) + (add-before 'check 'disable-broken-tests + (lambda _ + (substitute* "test/choosetests.jl" + ;; These tests time out. See + ;; https://github.com/JuliaLang/julia/issues/14374 for ongoing + ;; discussion. + (("\"replcompletions\",") "") + (("\"repl\",") "")) + (substitute* "test/repl.jl" + ;; This test fails because we cannot escape the build + ;; directory. + (("@test pwd\\(\\) == homedir\\(\\)") "#")) + #t))) #:make-flags (list (string-append "prefix=" (assoc-ref %outputs "out")) @@ -163,7 +186,6 @@ (_ "MARCH=UNSUPPORTED")) "CONFIG_SHELL=bash" ;needed to build bundled libraries - "USE_SYSTEM_LIBUV=0" ;Julia expects a modified libuv "USE_SYSTEM_DSFMT=0" ;not packaged for Guix and upstream has no ;build system for a shared library. "USE_SYSTEM_RMATH=0" ;Julia uses a bundled version of R's math @@ -184,10 +206,22 @@ ;; (assoc-ref %build-inputs "suitesparse") ;; "/include") + "USE_GPL_LIBS=1" ;proudly "USE_SYSTEM_GRISU=1" ;for double-conversion "USE_SYSTEM_UTF8PROC=1" + (string-append "UTF8PROC_INC=" + (assoc-ref %build-inputs "utf8proc") + "/include") "USE_SYSTEM_LLVM=1" "USE_SYSTEM_LIBUNWIND=1" + "USE_SYSTEM_LIBUV=1" + (string-append "LIBUV=" + (assoc-ref %build-inputs "libuv") + "/lib/libuv.so") + (string-append "LIBUV_INC=" + (assoc-ref %build-inputs "libuv") + "/include") + "USE_SYSTEM_PATCHELF=1" "USE_SYSTEM_PCRE=1" "USE_SYSTEM_OPENLIBM=1" "USE_SYSTEM_GMP=1" @@ -198,26 +232,29 @@ (inputs `(("llvm" ,llvm-3.5) ("arpack-ng" ,arpack-ng) + ("coreutils" ,coreutils) ;for bindings to "mkdir" and the like ("lapack" ,lapack) ("openblas" ,openblas) ;Julia does not build with Atlas ("libunwind" ,libunwind) ("openlibm" ,openlibm) ("openspecfun" ,openspecfun) ("double-conversion" ,double-conversion) + ("libgit2" ,libgit2) ("fftw" ,fftw) ("fftwf" ,fftwf) ("fortran" ,gfortran) - ("pcre" ,pcre) + ("libuv" ,libuv-julia) + ("pcre2" ,pcre2) ("utf8proc" ,utf8proc) - ("git" ,git) ("mpfr" ,mpfr) + ("wget" ,wget) + ("which" ,which) ("gmp" ,gmp))) (native-inputs `(("perl" ,perl) ("patchelf" ,patchelf) ("pkg-config" ,pkg-config) - ("python" ,python-2) - ("which" ,which))) + ("python" ,python-2))) ;; Julia is not officially released for ARM and MIPS. ;; See https://github.com/JuliaLang/julia/issues/10639 (supported-systems '("i686-linux" "x86_64-linux")) diff --git a/gnu/packages/patches/julia-0.3.10-fix-empty-array.patch b/gnu/packages/patches/julia-0.3.10-fix-empty-array.patch deleted file mode 100644 index b00f6549e3..0000000000 --- a/gnu/packages/patches/julia-0.3.10-fix-empty-array.patch +++ /dev/null @@ -1,13 +0,0 @@ -See https://github.com/JuliaLang/julia/issues/11817 - ---- a/src/codegen.cpp 2015-06-24 12:44:31.218674066 +0200 -+++ b/src/codegen.cpp 2015-04-23 11:19:50.000000000 +0200 -@@ -4551,7 +4551,7 @@ - #ifdef V128_BUG - "-avx", - #endif -- }; -+ ""}; - SmallVector<std::string, 4> MAttrs(mattr, mattr+sizeof(mattr)/sizeof(mattr[0])); - EngineBuilder eb = EngineBuilder(engine_module) - .setEngineKind(EngineKind::JIT) |