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authorpjotrp2020-01-30 07:21:45 -0600
committerpjotrp2020-01-30 07:21:45 -0600
commitf7b75fe1730e6e5e77768d332f9f3946b5218c8c (patch)
treeb334fa3d71b186b12c1b0870c3a719739a641c1f /gn/packages/genenetwork.scm
parentdc32557302df79728b6a6dcf5b220a8be31e2f09 (diff)
parentee8620533b482f662410f89d7ad569fbac0042a7 (diff)
downloadguix-bioinformatics-f7b75fe1730e6e5e77768d332f9f3946b5218c8c.tar.gz
Merge branch 'master' of gitlab.com:genenetwork/guix-bioinformatics
Diffstat (limited to 'gn/packages/genenetwork.scm')
-rw-r--r--gn/packages/genenetwork.scm83
1 files changed, 12 insertions, 71 deletions
diff --git a/gn/packages/genenetwork.scm b/gn/packages/genenetwork.scm
index 489a88f..232e4f7 100644
--- a/gn/packages/genenetwork.scm
+++ b/gn/packages/genenetwork.scm
@@ -27,6 +27,7 @@
#:use-module (gnu packages version-control)
#:use-module (gnu packages vim)
#:use-module (gnu packages web)
+ #:use-module (gnu packages xml)
#:use-module (gn packages bioinformatics)
#:use-module (gn packages crates-io)
#:use-module (gn packages elixir)
@@ -205,83 +206,23 @@ location of a putative QTL.")
`(#:cargo-inputs
(("rust-rand" ,rust-rand-0.6)
("rust-structopt" ,rust-structopt-0.2)
- ("rust-rayon" ,rust-rayon-1.0)
+ ("rust-rayon" ,rust-rayon-1.3)
("rust-serde" ,rust-serde-1.0)
("rust-serde-json" ,rust-serde-json-1.0)
("rust-ndarray" ,rust-ndarray-0.12))
- #:cargo-development-inputs
- (("rust-ansi-term" ,rust-ansi-term-0.11)
- ("rust-arrayvec" ,rust-arrayvec-0.4)
- ("rust-atty" ,rust-atty-0.2)
- ("rust-autocfg" ,rust-autocfg-0.1)
- ("rust-bitflags" ,rust-bitflags-1)
- ("rust-cfg-if" ,rust-cfg-if-0.1)
- ("rust-clap" ,rust-clap-2)
- ("rust-cloudabi" ,rust-cloudabi-0.0)
- ("rust-crossbeam-deque" ,rust-crossbeam-deque-0.2)
- ("rust-crossbeam-epoch" ,rust-crossbeam-epoch-0.3)
- ("rust-crossbeam-utils" ,rust-crossbeam-utils-0.2)
- ("rust-either" ,rust-either-1.5)
- ("rust-fuchsia-cprng" ,rust-fuchsia-cprng-0.1)
- ("rust-heck" ,rust-heck-0.3)
- ("rust-itertools" ,rust-itertools-0.7)
- ("rust-itoa" ,rust-itoa-0.4)
- ("rust-lazy-static" ,rust-lazy-static-1.3)
- ("rust-libc" ,rust-libc-0.2)
- ("rust-maxtrixmultiply" ,rust-matrixmultiply-0.1)
- ("rust-memoffset" ,rust-memoffset-0.2)
- ("rust-nodrop" ,rust-nodrop-0.1)
- ("rust-num-complex" ,rust-num-complex-0.2)
- ("rust-num-cpus" ,rust-num-cpus-1.10)
- ("rust-num-traits" ,rust-num-traits-0.2)
- ("rust-numtoa" ,rust-numtoa-0.1)
- ("rust-proc-macro2" ,rust-proc-macro2-1.0)
- ("rust-proc-macro2" ,rust-proc-macro2-0.4)
- ("rust-quote" ,rust-quote-1.0)
- ("rust-quote" ,rust-quote-0.6)
- ("rust-rand" ,rust-rand-0.6)
- ("rust-rand-chacha" ,rust-rand-chacha-0.1)
- ("rust-rand-core" ,rust-rand-core-0.3)
- ("rust-rand-hc" ,rust-rand-hc-0.1)
- ("rust-rand-isaac" ,rust-rand-isaac-0.1)
- ("rust-rand-jitter" ,rust-rand-jitter-0.1)
- ("rust-rand-os" ,rust-rand-os-0.1)
- ("rust-rand-pcg" ,rust-rand-pcg-0.1)
- ("rust-rand-xorshift" ,rust-rand-xorshift-0.1)
- ("rust-rawpointer" ,rust-rawpointer-0.1)
- ("rust-rayon" ,rust-rayon-1.0)
- ("rust-rayon-core" ,rust-rayon-core-1.4)
- ("rust-rdrand" ,rust-rdrand-0.4)
- ("rust-redox-syscall" ,rust-redox-syscall-0.1)
- ("rust-redox-termios" ,rust-redox-termios-0.1)
- ("rust-ryu" ,rust-ryu-1.0)
- ("rust-scopeguard" ,rust-scopeguard-0.3)
- ("rust-serde" ,rust-serde-1.0)
- ("rust-serde-derive" ,rust-serde-derive-1.0)
- ("rust-serde-json" ,rust-serde-json-1.0)
- ("rust-strsim" ,rust-strsim-0.8)
- ("rust-structopt" ,rust-structopt-0.2)
- ("rust-structopt-derive" ,rust-structopt-derive-0.2)
- ("rust-syn" ,rust-syn-1.0)
- ("rust-syn" ,rust-syn-0.15)
- ("rust-termion" ,rust-termion-1.5)
- ("rust-textwrap" ,rust-textwrap-0.11)
- ("rust-unicode-segmentation" ,rust-unicode-segmentation-1.6)
- ("rust-unicode-width" ,rust-unicode-width-0.1)
- ("rust-unicode-xid" ,rust-unicode-xid-0.2)
- ("rust-unicode-xid" ,rust-unicode-xid-0.1)
- ("rust-vec-map" ,rust-vec-map-0.8)
- ("rust-winapi" ,rust-winapi-0.3))
- #:tests? #f ; Test results vary based on the machine running them.
#:phases
(modify-phases %standard-phases
- (add-after 'unpack 'update-test-data
+ ;; Test results vary based on the machine running them.
+ (replace 'check
(lambda _
- (substitute* "src/geneobject.rs"
- ;; array![Genotype::Unk, Genotype::Unk, Genotype::Pat]
- (("0.3421367343627405") "0.3421367343627406")
- ;; array![Genotype::Unk, Genotype::Unk, Genotype::Unk]
- (("-0.3223330030526561") "-0.32233300305265566"))
+ (or (assoc-ref %standard-phases 'check)
+ (begin
+ (substitute* "src/geneobject.rs"
+ ;; array![Genotype::Unk, Genotype::Unk, Genotype::Pat]
+ (("0.3421367343627405") "0.3421367343627406")
+ ;; array![Genotype::Unk, Genotype::Unk, Genotype::Unk]
+ (("-0.3223330030526561") "-0.32233300305265566"))
+ (assoc-ref %standard-phases 'check)))
#t)))))
(home-page "https://github.com/chfi/rust-qtlreaper")
(synopsis "Reimplementation of genenetwork/QTLReaper in Rust")