diff options
Diffstat (limited to 'gnu/packages')
| -rw-r--r-- | gnu/packages/admin.scm | 4 | ||||
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 37 | ||||
| -rw-r--r-- | gnu/packages/code.scm | 14 | ||||
| -rw-r--r-- | gnu/packages/conky.scm | 2 | ||||
| -rw-r--r-- | gnu/packages/debug.scm | 14 | ||||
| -rw-r--r-- | gnu/packages/emacs.scm | 2 | ||||
| -rw-r--r-- | gnu/packages/engineering.scm | 14 |
7 files changed, 38 insertions, 49 deletions
diff --git a/gnu/packages/admin.scm b/gnu/packages/admin.scm index 4b14e0ef32..4197f63983 100644 --- a/gnu/packages/admin.scm +++ b/gnu/packages/admin.scm @@ -905,9 +905,7 @@ commands and their arguments.") (man8 (string-append man "/man8"))) (define (copy-man-page target) (lambda (file) - (copy-file file - (string-append target "/" - (basename file))))) + (install-file file target))) (mkdir-p man5) (mkdir man8) (for-each (copy-man-page man5) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 239b94b6c4..3387a2571a 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -151,11 +151,9 @@ and several other tools.") (bin (string-append out "/bin")) (man (string-append out "/share/man/man1"))) (mkdir-p bin) - (copy-file "aragorn" - (string-append bin "/aragorn")) + (install-file "aragorn" bin) (mkdir-p man) - (copy-file "aragorn.1" - (string-append man "/aragorn.1"))) + (install-file "aragorn.1" man)) #t))))) (home-page "http://mbio-serv2.mbioekol.lu.se/ARAGORN") (synopsis "Detect tRNA, mtRNA and tmRNA genes in nucleotide sequences") @@ -1700,15 +1698,16 @@ gene predictor designed to work with assembled, aligned RNA-seq transcripts.") (replace 'install (lambda* (#:key outputs #:allow-other-keys) - (let ((out (assoc-ref outputs "out"))) + (let* ((out (assoc-ref outputs "out")) + (bin (string-append out "/bin"))) (copy-recursively "src" (string-append out "/src")) - (mkdir (string-append out "/bin")) + (mkdir bin) ;; Add "src" directory to module lookup path. (substitute* "couger" (("from argparse") (string-append "import sys\nsys.path.append(\"" out "\")\nfrom argparse"))) - (copy-file "couger" (string-append out "/bin/couger"))) + (install-file "couger" bin)) #t)) (add-after 'install 'wrap-program @@ -2231,8 +2230,7 @@ quantitative phenotypes.") (let ((target (string-append (assoc-ref outputs "out") "/bin"))) (mkdir-p target) - (copy-file "edirect.pl" - (string-append target "/edirect.pl")) + (install-file "edirect.pl" target) #t))) (add-after 'install 'wrap-program @@ -2378,10 +2376,8 @@ ChIP-Seq, and analysis of metagenomic data.") (let ((bin (string-append (assoc-ref outputs "out") "/bin"))) (mkdir-p bin) - (copy-file "scripts/convertToEBD.py" - (string-append bin "/convertToEBD.py")) - (copy-file "bin/ExpressBetaDiversity" - (string-append bin "/ExpressBetaDiversity")) + (install-file "scripts/convertToEBD.py" bin) + (install-file "bin/ExpressBetaDiversity" bin) #t)))))) (inputs `(("python" ,python-2))) @@ -2440,10 +2436,8 @@ similarity of community members.") (let ((bin (string-append (assoc-ref outputs "out") "/bin"))) (mkdir-p bin) - (copy-file "FastTree" - (string-append bin "/FastTree")) - (copy-file "FastTreeMP" - (string-append bin "/FastTreeMP")) + (install-file "FastTree" bin) + (install-file "FastTreeMP" bin) #t)))))) (home-page "http://www.microbesonline.org/fasttree") (synopsis "Infers approximately-maximum-likelihood phylogenetic trees") @@ -4101,11 +4095,9 @@ phylogenies.") (mkdir-p bin) (mkdir-p perl) (for-each (lambda (file) - (copy-file file - (string-append bin (basename file)))) + (install-file file bin)) (find-files "." "rsem-.*")) - (copy-file "rsem_perl_utils.pm" - (string-append perl "/rsem_perl_utils.pm"))) + (install-file "rsem_perl_utils.pm" perl)) #t)) (add-after 'install 'wrap-program @@ -4336,8 +4328,7 @@ viewer.") (let ((bin (string-append (assoc-ref outputs "out") "/bin"))) (mkdir-p bin) - (copy-file "samtools" - (string-append bin "/samtools")) + (install-file "samtools" bin) #t))) (delete 'patch-tests) (delete 'configure)))))))) diff --git a/gnu/packages/code.scm b/gnu/packages/code.scm index f91fdab153..3aaa754c09 100644 --- a/gnu/packages/code.scm +++ b/gnu/packages/code.scm @@ -271,13 +271,13 @@ features that are not supported by the standard @code{stdio} implementation.") (replace 'install (lambda* (#:key outputs #:allow-other-keys) - (let ((out (assoc-ref outputs "out"))) - (mkdir-p (string-append out "/lib")) - (mkdir (string-append out "/include")) - (copy-file "src/withershins.hpp" - (string-append out "/include/withershins.hpp")) - (copy-file "src/libwithershins.a" - (string-append out "/lib/libwithershins.a"))) + (let* ((out (assoc-ref outputs "out")) + (include (string-append out "/include")) + (lib (string-append out "/lib"))) + (mkdir-p include) + (install-file "src/withershins.hpp" include) + (mkdir-p lib) + (install-file "src/libwithershins.a" lib)) #t))))) (home-page "https://github.com/cameronwhite/withershins") (inputs diff --git a/gnu/packages/conky.scm b/gnu/packages/conky.scm index 9c933a4bc0..1f5b38eef4 100644 --- a/gnu/packages/conky.scm +++ b/gnu/packages/conky.scm @@ -64,7 +64,7 @@ (lambda* (#:key outputs #:allow-other-keys) (let ((bin (string-append (assoc-ref outputs "out") "/bin"))) (mkdir-p bin) - (copy-file "src/conky" (string-append bin "/conky")))) + (install-file "src/conky" bin))) %standard-phases)))) (inputs `(("freetype" ,freetype) diff --git a/gnu/packages/debug.scm b/gnu/packages/debug.scm index 6278f661ef..27193c8bba 100644 --- a/gnu/packages/debug.scm +++ b/gnu/packages/debug.scm @@ -68,10 +68,10 @@ (mkdir-p bin) (mkdir-p doc) (for-each (lambda (h) - (copy-file h (string-append doc "/" (basename h)))) + (install-file h doc)) `("License.txt" ,@(find-files "www" ".*\\.html"))) (for-each (lambda (b) - (copy-file b (string-append bin "/" b))) + (install-file b bin)) `("delta" "multidelta" "topformflat"))))) (alist-delete 'configure %standard-phases)))) (home-page "http://delta.tigris.org/") @@ -212,13 +212,13 @@ tools that process C/C++ code.") (system* "tar" "xf" (assoc-ref inputs "afl-src"))) (error "tar failed to unpack afl-src")) - (copy-file (string-append patch-dir - "/afl-qemu-cpu-inl.h") - "./afl-qemu-cpu-inl.h") + (install-file (string-append patch-dir + "/afl-qemu-cpu-inl.h") + ".") (copy-file (string-append afl-dir "/config.h") "./afl-config.h") - (copy-file (string-append afl-dir "/types.h") - "./types.h") + (install-file (string-append afl-dir "/types.h") + ".") (substitute* "afl-qemu-cpu-inl.h" (("\\.\\./\\.\\./config.h") "afl-config.h")) (substitute* (string-append patch-dir diff --git a/gnu/packages/emacs.scm b/gnu/packages/emacs.scm index 3db5527e60..c6e62acb7a 100644 --- a/gnu/packages/emacs.scm +++ b/gnu/packages/emacs.scm @@ -2101,7 +2101,7 @@ to a key in your preferred mode.") ;; keep only file of interest '(begin (for-each delete-file '("dot-emacs.el" "Makefile")) - (copy-file "6.945-config/mit-scheme-doc.el" "mit-scheme-doc.el") + (install-file "6.945-config/mit-scheme-doc.el" ".") (delete-file-recursively "6.945-config"))) (file-name (string-append name "-" version ".tar.bz2")) (method url-fetch) diff --git a/gnu/packages/engineering.scm b/gnu/packages/engineering.scm index 23446bafa8..dd56af99da 100644 --- a/gnu/packages/engineering.scm +++ b/gnu/packages/engineering.scm @@ -96,13 +96,13 @@ (assoc-ref inputs "boost"))))) (replace 'install (lambda* (#:key outputs #:allow-other-keys) - (let ((out (assoc-ref outputs "out"))) - (mkdir-p (string-append out "/bin")) - (mkdir-p (string-append out "/share/librecad")) - (copy-file "unix/librecad" - (string-append out "/bin/librecad")) - (copy-recursively "unix/resources" - (string-append out "/share/librecad")))))))) + (let* ((out (assoc-ref outputs "out")) + (bin (string-append out "/bin")) + (share (string-append out "/share/librecad"))) + (mkdir-p bin) + (install-file "unix/librecad" bin) + (mkdir-p share) + (copy-recursively "unix/resources" share))))))) (inputs `(("boost" ,boost) ("muparser" ,muparser) |