diff options
Diffstat (limited to 'gn/packages/genenetwork.scm')
| -rw-r--r-- | gn/packages/genenetwork.scm | 28 |
1 files changed, 16 insertions, 12 deletions
diff --git a/gn/packages/genenetwork.scm b/gn/packages/genenetwork.scm index 1d22a59..f8db089 100644 --- a/gn/packages/genenetwork.scm +++ b/gn/packages/genenetwork.scm @@ -19,7 +19,6 @@ #:use-module (guix packages) #:use-module (gnu packages) #:use-module (gnu packages base) - #:use-module (gnu packages certs) #:use-module ((gnu packages nss) #:select (nss-certs)) #:use-module (gnu packages bioconductor) #:use-module (gnu packages bioinformatics) @@ -65,7 +64,7 @@ (define-public rust-qtlreaper - (let ((commit "2e7fed6d45b0b602d80fa2a55835f96ef1cba9e3") + (let ((commit "4dafa7289432d10685b6b235e3552ac3d681bb03") (revision "1")) (package (name "rust-qtlreaper") @@ -74,12 +73,12 @@ (origin (method git-fetch) (uri (git-reference - (url "https://github.com/chfi/rust-qtlreaper.git") + (url "https://github.com/genenetwork/rust-qtlreaper.git") (commit commit))) (file-name (git-file-name name version)) (sha256 (base32 - "0h70aalsplmc6xn1w7ha102n3bsi3gqkbnbrjvjm2za37c07gv0g")))) + "1p7dmxh43ly0k7q6va0lzisqnk1i7af3dy5aw1sr4y5s7z0h6i0y")))) (build-system cargo-build-system) (arguments `(#:cargo-inputs @@ -103,7 +102,7 @@ (("-0.3223330030526561") "-0.32233300305265566")) (assoc-ref %standard-phases 'check))) #t))))) - (home-page "https://github.com/chfi/rust-qtlreaper") + (home-page "https://github.com/genenetwork/rust-qtlreaper") (synopsis "Reimplementation of genenetwork/QTLReaper in Rust") (description "Reimplementation of genenetwork/QTLReaper in Rust") (license #f)))) @@ -118,7 +117,7 @@ ((#:tests? _ #f) #f))))) (define-public genenetwork3 - (let ((commit "019282e64fb401f7a6823f3c8914d1d6e5ad0233") + (let ((commit "e6c44577b2489f7b1523cb6a5fd332015bde25c5") (revision "5")) (package (name "genenetwork3") @@ -132,7 +131,7 @@ (file-name (git-file-name name version)) (sha256 (base32 - "1rr2y4i93kpc998a123d32yaakqmqiv5b7n4xva01j6jfqjsgw9s")))) + "0i2n46lg73w06dfqcs4sxvwwfdxa0536gv95ism85h4j3dm9vzhz")))) (inputs (list python-click)) (native-inputs @@ -170,6 +169,7 @@ python-scikit-learn python-scipy python-sparqlwrapper + python-structlog python-wrapper python-xapian-bindings r @@ -227,7 +227,7 @@ storage.") (license license:bsd-3))) (define-public genenetwork2 - (let ((commit "e2f9e829bffcbffc5934e6b11685e5631fd7a001") + (let ((commit "5e596f0814b4cad57a847fae03df2867b6327653") (revision "4")) (package (name "genenetwork2") @@ -240,7 +240,7 @@ storage.") (file-name (string-append name "-" version)) (sha256 (base32 - "13bcq0ya9sjpf3lx2gdzwsm0ya3y0l4qq48198bqinjbh6avqq1f")))) + "1arnq4b7c6i6fnvfim3yyghrvr0ncjdp1a4ix1hgj9bz2r9vxnzi")))) (native-inputs (list graphviz)) (propagated-inputs @@ -347,6 +347,7 @@ storage.") python-wrapper python-xlsxwriter python-pillow-9 + python-structlog r r-ctl r-qtl @@ -508,7 +509,8 @@ storage.") javascript-datatables-select javascript-datatables-buttons-3 javascript-datatables-scroller-2 - node-resumablejs)) + node-resumablejs + rust-qtlreaper)) (synopsis "GeneNetwork Quality Control Application") (description "gn-uploader is a service allowing upload of new data into GeneNetwork, @@ -564,6 +566,7 @@ storage.") python-mysqlclient-2.2.7 python-pymonad python-redis + python-structlog yoyo-migrations)) (home-page "https://github.com/genenetwork/gn-auth") (synopsis "Authentication and Authorisation server for GeneNetwork services") @@ -572,7 +575,7 @@ storage.") (define-public gn-libs - (let ((commit "894021d27da14bfb0bf286e188a36741bc475906") + (let ((commit "9422e39e5b79a4aaca7dc368368d39141a0242b7") (revision "02")) (package (name "gn-libs") @@ -587,7 +590,7 @@ storage.") (hash (content-hash (base32 - "0ysj8cs259naa0s6s0gr8149qj6zra3iq0n1fspq3bw0ij54wf8i"))))) + "03i1kj7jbmlkjs61a9fb4j3s78p4d5lmd8lqnfsv42wxwwyvsm8p"))))) (build-system pyproject-build-system) (arguments (list @@ -607,6 +610,7 @@ storage.") (list python-authlib python-pymonad python-requests + python-structlog python-mysqlclient-2.2.7)) (home-page "https://github.com/genenetwork/gn-libs") (synopsis "Tools/utilities for GeneNetwork projects.") |