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authorEfraim Flashner2019-09-29 08:14:08 -0500
committerEfraim Flashner2019-09-29 08:14:08 -0500
commitb1401a0c37d5e36431f06bd96855143a461ce76a (patch)
tree90a91b05e626d61f5e6fb3b3581d6123551fc22b /gn
parent1f72cc29b57416e433d11d84c2b26d61a9cb708f (diff)
downloadguix-bioinformatics-b1401a0c37d5e36431f06bd96855143a461ce76a.tar.gz
gn: Fixup more crates
Diffstat (limited to 'gn')
-rw-r--r--gn/packages/crates-io.scm276
1 files changed, 197 insertions, 79 deletions
diff --git a/gn/packages/crates-io.scm b/gn/packages/crates-io.scm
index 5bad4e0..39e9e17 100644
--- a/gn/packages/crates-io.scm
+++ b/gn/packages/crates-io.scm
@@ -113,7 +113,8 @@
("rust-clap" ,rust-clap)
("rust-findshlibs" ,rust-findshlibs-0.4)
("rust-memmap" ,rust-memmap)
- ("rust-rustc-test" ,rust-rustc-test))))))
+ ("rust-rustc-test" ,rust-rustc-test))
+ #:tests? #f)))) ; TODO: All the tests fail.
(define-public rust-afl
(package
@@ -138,8 +139,7 @@
(("rust-rustc-version" ,rust-rustc-version)
("rust-xdg" ,rust-xdg))))
(home-page "https://github.com/rust-fuzz/afl.rs")
- (synopsis
- "Fuzzing Rust code with american-fuzzy-lop")
+ (synopsis "Fuzzing Rust code with american-fuzzy-lop")
(description
"Fuzzing Rust code with american-fuzzy-lop")
(license license:asl2.0)))
@@ -383,9 +383,9 @@ password-based key derivation.")
(build-system cargo-build-system)
(arguments
`(#:cargo-inputs
- (("rust-proc-macro2" ,rust-proc-macro2)
- ("rust-quote" ,rust-quote)
- ("rust-syn" ,rust-syn))))
+ (("rust-proc-macro2" ,rust-proc-macro2-1)
+ ("rust-quote" ,rust-quote-1)
+ ("rust-syn" ,rust-syn-1))))
(home-page "https://github.com/dtolnay/automod")
(synopsis "Pull in every source file in a directory as a module.")
(description
@@ -805,7 +805,7 @@ length} and @code{key length} parameters can be used.")
(("rust-accelerate-src" ,rust-accelerate-src)
("rust-intel-mkl-src" ,rust-intel-mkl-src)
("rust-netlib-src" ,rust-netlib-src)
- ("rust-openblas-src" ,rust-openblas-src))))
+ ("rust-openblas-src" ,rust-openblas-src-0.6))))
(home-page
"https://github.com/blas-lapack-rs/blas-src")
(synopsis
@@ -1064,8 +1064,9 @@ length} and @code{key length} parameters can be used.")
"09yl2700crxa4n860b080msij25klvs1kfzazhp2aihchvr16q4j"))))
(build-system cargo-build-system)
(arguments
- `(#:cargo-development-inputs
- (("rust-quickcheck" ,rust-quickcheck-0.4))))
+ `(#:cargo-development-inputs
+ (("rust-quickcheck" ,rust-quickcheck-0.4))
+ #:tests? #f)) ; Tests require 'unicode' crate.
(home-page "https://github.com/japaric/cast.rs")
(synopsis
"Ergonomic, checked cast functions for primitive types")
@@ -1180,19 +1181,18 @@ length} and @code{key length} parameters can be used.")
(origin
(method url-fetch)
(uri (crate-uri "ci_info" version))
- (file-name
- (string-append name "-" version ".tar.gz"))
+ (file-name (string-append name "-" version ".tar.gz"))
(sha256
- (base32
- "01n3gxmwp765m6xg1fl8v1y12wsvbqvlcai27kdr5d2skrijyfb7"))))
+ (base32
+ "01n3gxmwp765m6xg1fl8v1y12wsvbqvlcai27kdr5d2skrijyfb7"))))
(build-system cargo-build-system)
(arguments
- `(#:cargo-inputs
- (("rust-envmnt" ,rust-envmnt)
- ("rust-serde" ,rust-serde)
- ("rust-serde-derive" ,rust-serde-derive))))
- (home-page
- "https://github.com/sagiegurari/ci_info")
+ `(#:cargo-inputs
+ (("rust-envmnt" ,rust-envmnt)
+ ("rust-serde" ,rust-serde)
+ ("rust-serde-derive" ,rust-serde-derive))
+ #:tests? #f)) ; Tests require internet.
+ (home-page "https://github.com/sagiegurari/ci_info")
(synopsis
"Provides current CI environment information.")
(description
@@ -1276,60 +1276,34 @@ length} and @code{key length} parameters can be used.")
(origin
(method url-fetch)
(uri (crate-uri "clap" version))
- (file-name
- (string-append name "-" version ".tar.gz"))
+ (file-name (string-append name "-" version ".tar.gz"))
(sha256
(base32
"1nf6ld3bims1n5vfzhkvcb55pdzh04bbhzf8nil5vvw05nxzarsh"))))
(build-system cargo-build-system)
(arguments
- `(#:cargo-inputs
- (("rust-ansi-term" ,rust-ansi-term)
- ("rust-atty" ,rust-atty)
- ("rust-bitflags" ,rust-bitflags)
- ("rust-clippy" ,rust-clippy)
- ("rust-strsim" ,rust-strsim-0.8)
- ("rust-term-size" ,rust-term-size)
- ("rust-textwrap" ,rust-textwrap)
- ("rust-unicode-width" ,rust-unicode-width)
- ("rust-vec-map" ,rust-vec-map)
- ("rust-yaml-rust" ,rust-yaml-rust-0.3))
- #:cargo-development-inputs
- (("rust-lazy-static" ,rust-lazy-static)
- ("rust-regex" ,rust-regex)
- ("rust-version-sync" ,rust-version-sync))))
+ `(#:cargo-inputs
+ (("rust-ansi-term" ,rust-ansi-term)
+ ("rust-atty" ,rust-atty)
+ ("rust-bitflags" ,rust-bitflags)
+ ("rust-clippy" ,rust-clippy)
+ ("rust-strsim" ,rust-strsim-0.8)
+ ("rust-term-size" ,rust-term-size)
+ ("rust-textwrap" ,rust-textwrap)
+ ("rust-unicode-width" ,rust-unicode-width)
+ ("rust-vec-map" ,rust-vec-map)
+ ("rust-yaml-rust" ,rust-yaml-rust-0.3))
+ #:cargo-development-inputs
+ (("rust-lazy-static" ,rust-lazy-static)
+ ("rust-regex" ,rust-regex)
+ ("rust-version-sync" ,rust-version-sync))))
(home-page "https://clap.rs/")
- (synopsis
- "A simple to use, efficient, and full-featured Command Line Argument Parser")
+ (synopsis "Command Line Argument Parser")
(description
- "This package provides a simple to use, efficient, and full-featured Command Line Argument Parser")
+ "This package provides a simple to use, efficient, and full-featured
+Command Line Argument Parser.")
(license license:expat)))
-(define-public rust-clippy
- (package
- (name "rust-clippy")
- (version "0.0.302")
- (source
- (origin
- (method url-fetch)
- (uri (crate-uri "clippy" version))
- (file-name
- (string-append name "-" version ".tar.gz"))
- (sha256
- (base32
- "1562x3sq9mgmc8j39gd34wqm7ybrdvpmj7cc1n450gwsawayw4fr"))))
- (build-system cargo-build-system)
- (arguments
- `(#:cargo-inputs
- (("rust-term" ,rust-term-0.5))))
- (home-page "https://github.com/rust-lang/rust-clippy")
- (synopsis
- "A bunch of helpful lints to avoid common pitfalls in Rust.")
- (description
- "This package provides a bunch of helpful lints to avoid common pitfalls in Rust.")
- (license (list license:asl2.0
- license:expat))))
-
(define-public rust-compiler-error
(package
(name "rust-compiler-error")
@@ -2475,7 +2449,14 @@ attributes.")
(arguments
`(#:cargo-inputs
(("rust-encoding-index-tests"
- ,rust-encoding-index-tests))))
+ ,rust-encoding-index-tests))
+ #:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'fix-Cargo-toml
+ (lambda _
+ (substitute* "Cargo.toml"
+ ((".*../tests.*") ""))
+ #t)))))
(home-page
"https://github.com/lifthrasiir/rust-encoding")
(synopsis "Index tables for Japanese character encodings")
@@ -2500,7 +2481,14 @@ attributes.")
(arguments
`(#:cargo-inputs
(("rust-encoding-index-tests"
- ,rust-encoding-index-tests))))
+ ,rust-encoding-index-tests))
+ #:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'fix-Cargo-toml
+ (lambda _
+ (substitute* "Cargo.toml"
+ ((".*../tests.*") ""))
+ #t)))))
(home-page
"https://github.com/lifthrasiir/rust-encoding")
(synopsis "Index tables for Korean character encodings")
@@ -2525,7 +2513,14 @@ attributes.")
(arguments
`(#:cargo-inputs
(("rust-encoding-index-tests"
- ,rust-encoding-index-tests))))
+ ,rust-encoding-index-tests))
+ #:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'fix-Cargo-toml
+ (lambda _
+ (substitute* "Cargo.toml"
+ ((".*../tests.*") ""))
+ #t)))))
(home-page
"https://github.com/lifthrasiir/rust-encoding")
(synopsis "Index tables for simple Chienese character encodings")
@@ -2550,7 +2545,14 @@ attributes.")
(arguments
`(#:cargo-inputs
(("rust-encoding-index-tests"
- ,rust-encoding-index-tests))))
+ ,rust-encoding-index-tests))
+ #:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'fix-Cargo-toml
+ (lambda _
+ (substitute* "Cargo.toml"
+ ((".*../tests.*") ""))
+ #t)))))
(home-page
"https://github.com/lifthrasiir/rust-encoding")
(synopsis "Index tables for various single-byte character encodings")
@@ -2596,9 +2598,15 @@ attributes.")
(arguments
`(#:cargo-inputs
(("rust-encoding-index-tests"
- ,rust-encoding-index-tests))))
- (home-page
- "https://github.com/lifthrasiir/rust-encoding")
+ ,rust-encoding-index-tests))
+ #:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'fix-Cargo-toml
+ (lambda _
+ (substitute* "Cargo.toml"
+ ((".*../tests.*") ""))
+ #t)))))
+ (home-page "https://github.com/lifthrasiir/rust-encoding")
(synopsis "Index tables for traditional Chienese character encodings")
(description
"Index tables for traditional Chienese character encodings")
@@ -2984,9 +2992,9 @@ attributes.")
(build-system cargo-build-system)
(arguments
`(#:cargo-inputs
- (("rust-proc-macro2" ,rust-proc-macro2) ; 1.0
- ("rust-quote" ,rust-quote) ; 1.0
- ("rust-syn" ,rust-syn)))) ; 1.0
+ (("rust-proc-macro2" ,rust-proc-macro2-1)
+ ("rust-quote" ,rust-quote-1)
+ ("rust-syn" ,rust-syn-1))))
(home-page "https://github.com/dtolnay/rustversion")
(synopsis
"Conditional compilation according to rustc compiler version")
@@ -5282,7 +5290,7 @@ futures-rs.")
(("rust-rawpointer" ,rust-rawpointer))
#:cargo-development-inputs
(("rust-bencher" ,rust-bencher)
- ("rust-itertools" ,rust-itertools))))
+ ("rust-itertools" ,rust-itertools-0.7))))
(home-page
"https://github.com/bluss/matrixmultiply/")
(synopsis "General matrix multiplication for f32 and f64 matrices.")
@@ -5881,7 +5889,18 @@ futures-rs.")
(build-system cargo-build-system)
(arguments
`(#:cargo-development-inputs
- (("rust-libc" ,rust-libc))))
+ (("rust-libc" ,rust-libc))
+ #:cargo-build-flags '("--release" "--features=system")
+ #:cargo-test-flags '("--release" "--features=system")
+ #:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'unbundle-openblas
+ (lambda _
+ (delete-file-recursively "source")
+ #t)))))
+ (inputs
+ `(("gfortran" ,gfortran "lib")
+ ("openblas" ,openblas)))
(home-page "https://github.com/blas-lapack-rs/openblas-src")
(synopsis "Source of BLAS and LAPACK via OpenBLAS")
(description
@@ -5889,6 +5908,34 @@ futures-rs.")
(license (list license:asl2.0
license:expat))))
+(define-public rust-openblas-src-0.6
+ (package
+ (inherit rust-openblas-src)
+ (name "rust-openblas-src")
+ (version "0.6.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (crate-uri "openblas-src" version))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "1bbs55s8bz2z0gcj7kh9ykxqn3x79m4cnmip7r6n5w4msyinalmg"))))
+ (arguments
+ `(#:cargo-development-inputs
+ (("rust-libc" ,rust-libc))
+ #:cargo-build-flags '("--release" "--features=system")
+ #:cargo-test-flags '("--release" "--features=system")
+ #:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'unbundle-openblas
+ (lambda _
+ (delete-file-recursively "source")
+ #t)))))
+ (inputs
+ `(("gfortran" ,gfortran "lib")
+ ("openblas" ,openblas)))))
+
(define-public rust-openssl
(package
(name "rust-openssl")
@@ -5907,7 +5954,7 @@ futures-rs.")
`(#:cargo-inputs
(("rust-bitflags" ,rust-bitflags)
("rust-cfg-if" ,rust-cfg-if)
- ("rust-foreign-types" ,rust-foreign-types)
+ ("rust-foreign-types" ,rust-foreign-types) ; 0.3
("rust-lazy-static" ,rust-lazy-static)
("rust-libc" ,rust-libc)
("rust-openssl-sys" ,rust-openssl-sys))
@@ -6535,6 +6582,27 @@ futures-rs.")
(license (list license:asl2.0
license:expat))))
+(define-public rust-proc-macro2-1
+ (package
+ (inherit rust-proc-macro2)
+ (name "rust-proc-macro2")
+ (version "1.0.4")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (crate-uri "proc-macro2" version))
+ (file-name
+ (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "1k5brpv0c20whjhjvyjwksg4fgdcgnxjx53248kfsw7cfk67gp5g"))))
+ (build-system cargo-build-system)
+ (arguments
+ `(#:cargo-inputs
+ (("rust-unicode-xid" ,rust-unicode-xid))
+ #:cargo-development-inputs
+ (("rust-quote" ,rust-quote-1))))))
+
(define-public rust-proc-macro2-0.3.5
(package
(inherit rust-proc-macro2)
@@ -6889,6 +6957,28 @@ invocations.")
(delete 'build)) ; Build needs 'unicode' crate.
#:tests? #f)))) ; Tests need 'unicode' crate.
+(define-public rust-quote-1
+ (package
+ (inherit rust-quote)
+ (name "rust-quote")
+ (version "1.0.2")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (crate-uri "quote" version))
+ (file-name
+ (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "1zkc46ryacf2jdkc6krsy2z615xbk1x8kp1830rcxz3irj5qqfh5"))))
+ (build-system cargo-build-system)
+ (arguments
+ `(#:cargo-inputs
+ (("rust-proc-macro2" ,rust-proc-macro2-1))
+ #:cargo-development-inputs
+ (("rust-rustversion" ,rust-rustversion)
+ ("rust-trybuild" ,rust-trybuild))))))
+
(define-public rust-quote-0.5
(package
(inherit rust-quote)
@@ -7955,7 +8045,7 @@ invocations.")
"0ms9hgdhhsxw9w920i7gipydvagf100bb56jbs192rz86ln01v7r"))))
(arguments
`(#:cargo-development-inputs
- (("rust-quickcheck" ,rust-quickcheck) ; 0.2
+ (("rust-quickcheck" ,rust-quickcheck-0.2)
("rust-rand" ,rust-rand-0.3))))))
(define-public rust-reqwest
@@ -8228,7 +8318,7 @@ invocations.")
(("rust-no-panic" ,rust-no-panic))
#:cargo-development-inputs
(("rust-num-cpus" ,rust-num-cpus)
- ("rust-rand" ,rust-rand))))
+ ("rust-rand" ,rust-rand-0.5))))
(home-page "https://github.com/dtolnay/ryu")
(synopsis
"Fast floating point to string conversion")
@@ -9546,6 +9636,34 @@ function with proven statistical guarantees.")
("rust-regex" ,rust-regex)
("rust-walkdir" ,rust-walkdir))))))
+(define-public rust-syn-1
+ (package
+ (inherit rust-syn)
+ (name "rust-syn")
+ (version "1.0.5")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (crate-uri "syn" version))
+ (file-name
+ (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "1gw03w7lzrlqmp2vislcybikgl5wkhrqi6sy70w93xss2abhx1b6"))))
+ (build-system cargo-build-system)
+ (arguments
+ `(#:cargo-inputs
+ (("rust-proc-macro2" ,rust-proc-macro2-1)
+ ("rust-quote" ,rust-quote-1)
+ ("rust-unicode-xid" ,rust-unicode-xid))
+ #:cargo-development-inputs
+ (("rust-insta" ,rust-insta)
+ ("rust-rayon" ,rust-rayon)
+ ("rust-ref-cast" ,rust-ref-cast)
+ ("rust-regex" ,rust-regex)
+ ("rust-termcolor" ,rust-termcolor)
+ ("rust-walkdir" ,rust-walkdir))))))
+
(define-public rust-syn-0.11
(package
(inherit rust-syn)