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| author | Maxim Cournoyer <maxim.cournoyer@gmail.com> | 2023-10-20 01:06:22 -0400 |
|---|---|---|
| committer | Ludovic Courtès <ludo@gnu.org> | 2024-08-31 10:42:30 +0200 |
| commit | f1aa06f0b7ccd72b5d70353f90c65c72c52ff280 (patch) | |
| tree | c2f8a5e850047d8c39377c0b852bd970553e5d67 | |
| parent | 3fbd948450ddbcb24b648574d48560cf2dc98a92 (diff) | |
| download | guix-f1aa06f0b7ccd72b5d70353f90c65c72c52ff280.tar.gz guix-f1aa06f0b7ccd72b5d70353f90c65c72c52ff280.zip | |
gnu: roary: Add bash-minimal to inputs.
* gnu/packages/bioinformatics.scm (roary): Delete trailing #t.
[inputs]: Add bash-minimal. Remove labels.
Change-Id: Id5ea1b12e2fa641d96a762f5f3b89edbd43a4ffa
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 66 |
1 files changed, 32 insertions, 34 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 4e7231c274..ace5a3dad6 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -9366,8 +9366,7 @@ partial genes, and identifies translation initiation sites.") (for-each (lambda (file) (display file)(display "\n") (invoke "perl" file)) - (find-files "t" ".*\\.t$")) - #t)) + (find-files "t" ".*\\.t$")))) (replace 'install ;; There is no 'install' target in the Makefile. (lambda* (#:key outputs #:allow-other-keys) @@ -9378,8 +9377,7 @@ partial genes, and identifies translation initiation sites.") (mkdir-p bin) (mkdir-p perl) (copy-recursively "bin" bin) - (copy-recursively "lib" perl) - #t))) + (copy-recursively "lib" perl)))) (add-after 'install 'wrap-programs (lambda* (#:key inputs outputs #:allow-other-keys) (let* ((out (assoc-ref outputs "out")) @@ -9405,39 +9403,39 @@ partial genes, and identifies translation initiation sites.") (,(string-append r-site-lib ":" out "/site-library/")))) (wrap-program file `("PATH" ":" prefix - (,(string-append coreutils-path ":" out "/bin")))))) - #t))))) + (,(string-append coreutils-path ":" out "/bin"))))))))))) (native-inputs (list perl-env-path perl-test-files perl-test-most perl-test-output)) (inputs - `(("perl-array-utils" ,perl-array-utils) - ("bioperl" ,bioperl-minimal) - ("perl-digest-md5-file" ,perl-digest-md5-file) - ("perl-exception-class" ,perl-exception-class) - ("perl-file-find-rule" ,perl-file-find-rule) - ("perl-file-grep" ,perl-file-grep) - ("perl-file-slurper" ,perl-file-slurper) - ("perl-file-which" ,perl-file-which) - ("perl-graph" ,perl-graph) - ("perl-graph-readwrite" ,perl-graph-readwrite) - ("perl-log-log4perl" ,perl-log-log4perl) - ("perl-moose" ,perl-moose) - ("perl-perlio-utf8_strict" ,perl-perlio-utf8_strict) - ("perl-text-csv" ,perl-text-csv) - ("bedtools" ,bedtools) - ("cd-hit" ,cd-hit) - ("blast+" ,blast+) - ("mcl" ,mcl) - ("parallel" ,parallel) - ("prank" ,prank) - ("mafft" ,mafft) - ("fasttree" ,fasttree) - ("grep" ,grep) - ("sed" ,sed) - ("gawk" ,gawk) - ("r-minimal" ,r-minimal) - ("r-ggplot2" ,r-ggplot2) - ("coreutils" ,coreutils))) + (list bash-minimal + perl-array-utils + bioperl-minimal + perl-digest-md5-file + perl-exception-class + perl-file-find-rule + perl-file-grep + perl-file-slurper + perl-file-which + perl-graph + perl-graph-readwrite + perl-log-log4perl + perl-moose + perl-perlio-utf8_strict + perl-text-csv + bedtools + cd-hit + blast+ + mcl + parallel + prank + mafft + fasttree + grep + sed + gawk + r-minimal + r-ggplot2 + coreutils)) (home-page "https://sanger-pathogens.github.io/Roary/") (synopsis "High speed stand-alone pan genome pipeline") (description |