diff options
Diffstat (limited to 'gnu/packages/web.scm')
| -rw-r--r-- | gnu/packages/web.scm | 59 |
1 files changed, 44 insertions, 15 deletions
diff --git a/gnu/packages/web.scm b/gnu/packages/web.scm index 165a4fc236..35558b64c7 100644 --- a/gnu/packages/web.scm +++ b/gnu/packages/web.scm @@ -3,7 +3,7 @@ ;;; Copyright © 2013 Aljosha Papsch <misc@rpapsch.de> ;;; Copyright © 2014, 2015, 2016, 2017, 2018, 2019, 2020 Ludovic Courtès <ludo@gnu.org> ;;; Copyright © 2014, 2015, 2016 Mark H Weaver <mhw@netris.org> -;;; Copyright © 2015, 2016, 2017, 2018, 2019, 2020 Ricardo Wurmus <rekado@elephly.net> +;;; Copyright © 2015, 2016, 2017, 2018, 2019, 2020, 2021 Ricardo Wurmus <rekado@elephly.net> ;;; Copyright © 2018 Raoul Jean Pierre Bonnal <ilpuccio.febo@gmail.com> ;;; Copyright © 2015 Taylan Ulrich Bayırlı/Kammer <taylanbayirli@gmail.com> ;;; Copyright © 2015, 2016, 2017, 2018, 2019, 2020 Eric Bavier <bavier@posteo.net> @@ -367,14 +367,14 @@ the same, being completely separated from the Internet.") ;; ’stable’ and recommends that “in general you deploy the NGINX mainline ;; branch at all times” (https://www.nginx.com/blog/nginx-1-6-1-7-released/) ;; Consider updating the nginx-documentation package together with this one. - (version "1.19.9") + (version "1.19.10") (source (origin (method url-fetch) (uri (string-append "https://nginx.org/download/nginx-" version ".tar.gz")) (sha256 (base32 - "0hfqqyfgqa6wqazmb3d434nb3r5p8szfisa0m6nfh9lqdbqdyd9f")))) + "121d11693d6dbim3lh64hrqi66z129z30cvcrpbnm631yl7jkl78")))) (build-system gnu-build-system) (inputs `(("openssl" ,openssl) ("pcre" ,pcre) @@ -458,9 +458,9 @@ and as a proxy to reduce the load on back-end HTTP or mail servers.") (define-public nginx-documentation ;; This documentation should be relevant for the current nginx package. - (let ((version "1.19.9") - (revision 2696) - (changeset "f85798c1c70a")) + (let ((version "1.19.10") + (revision 2708) + (changeset "f8686d85df53")) (package (name "nginx-documentation") (version (simple-format #f "~A-~A-~A" version revision changeset)) @@ -472,7 +472,7 @@ and as a proxy to reduce the load on back-end HTTP or mail servers.") (file-name (string-append name "-" version)) (sha256 (base32 - "1ksl32jw6h3qzyxxlsdjag7fcjvk3md3hdxn6ljs8pr2nhk1v6cs")))) + "00b0dkpblw3m2cwbbzv3miw47c0m3s0dvh1xy0hihkggy7mqv2r2")))) (build-system gnu-build-system) (arguments '(#:tests? #f ; no test suite @@ -1175,7 +1175,7 @@ efficiently. It gives the application developer no more than 4 methods.") (define-public krona-tools (package (name "krona-tools") - (version "2.7") + (version "2.8") (source (origin (method url-fetch) (uri (string-append @@ -1183,7 +1183,7 @@ efficiently. It gives the application developer no more than 4 methods.") version "/KronaTools-" version ".tar")) (sha256 (base32 - "0wvgllcqscsfb4xc09y3fqhx8i38pmr4w55vjs5y79wx56n710iq")))) + "1h698wddb3hii68mnkby7s1x81vbhd4z1sf4ivm1lsi2nqlc1vsn")))) (build-system perl-build-system) (arguments `(#:phases @@ -1198,11 +1198,13 @@ efficiently. It gives the application developer no more than 4 methods.") (lambda* (#:key outputs #:allow-other-keys) (let ((bin (string-append (assoc-ref outputs "out") "/bin")) (perl (string-append (assoc-ref outputs "out") - "/lib/perl5/site_perl/krona-tools/lib"))) + "/lib/perl5/site_perl/krona-tools/lib")) + (share (string-append (assoc-ref outputs "out") + "/share/krona-tools"))) (mkdir-p bin) (for-each (lambda (script) - (let* ((executable (string-append "scripts/" script ".pl"))) + (let ((executable (string-append "scripts/" script ".pl"))) ;; Prefix executables with 'kt' as install script does. (copy-file executable (string-append bin "/kt" script)))) '("ClassifyBLAST" @@ -1230,7 +1232,32 @@ efficiently. It gives the application developer no more than 4 methods.") (copy-recursively directory (string-append perl "/../" directory))) (list "data" "img" "taxonomy" "src")) - (install-file "lib/KronaTools.pm" perl)))) + (install-file "lib/KronaTools.pm" perl) + + ;; Install downloaders + (substitute* "updateAccessions.sh" + (("ktPath=.*") (string-append "ktPath=" share "\n"))) + (substitute* "updateTaxonomy.sh" + (("ktPath=.*") (string-append "ktPath=" share "\n")) + (("command -v curl") + (string-append "command -v " (which "curl"))) + (("curl -s") + (string-append (which "curl") " -s")) + (("curl\\$timestring") + (string-append (which "curl") "$timestring")) + (("perl -M") + (string-append (which "perl") " -M")) + (("make ") + (string-append (which "make") " "))) + (for-each (lambda (file) + (install-file file (string-append share "/scripts"))) + '("scripts/extractTaxonomy.pl" + "scripts/accession2taxid.make" + "scripts/taxonomy.make")) + (for-each (lambda (file) + (install-file file share)) + '("updateAccessions.sh" + "updateTaxonomy.sh"))))) (add-after 'install 'wrap-program (lambda* (#:key inputs outputs #:allow-other-keys) (let* ((out (assoc-ref outputs "out")) @@ -1248,7 +1275,9 @@ efficiently. It gives the application developer no more than 4 methods.") (invoke (string-append (assoc-ref outputs "out") "/bin/ktImportText") "ec.tsv"))))))) (inputs - `(("perl" ,perl))) + `(("curl" ,curl) + ("make" ,gnu-make) + ("perl" ,perl))) (home-page "https://github.com/marbl/Krona/wiki") (synopsis "Hierarchical data exploration with zoomable HTML5 pie charts") (description @@ -1554,7 +1583,7 @@ used to validate and fix HTML data.") (define-public esbuild (package (name "esbuild") - (version "0.11.9") + (version "0.11.14") (source (origin (method git-fetch) @@ -1563,7 +1592,7 @@ used to validate and fix HTML data.") (commit (string-append "v" version)))) (file-name (git-file-name name version)) (sha256 - (base32 "0pi5ydvbcfi8dbq2ryw8z4197pf4jrlz8mj1vzkdff22ga9qcmxy")) + (base32 "0qxylzc7lzpsp5hm3dl5jvy9aca8azn8dmbjz9z5n5rkdmm8vd9p")) (modules '((guix build utils))) (snippet '(begin |