aboutsummaryrefslogtreecommitdiff
diff options
context:
space:
mode:
-rw-r--r--gn/packages/bioinformatics.scm93
1 files changed, 93 insertions, 0 deletions
diff --git a/gn/packages/bioinformatics.scm b/gn/packages/bioinformatics.scm
index 75449f3..a303baf 100644
--- a/gn/packages/bioinformatics.scm
+++ b/gn/packages/bioinformatics.scm
@@ -195,6 +195,99 @@ accurately delineate genomic rearrangements throughout the genome. Structural
variants can be visualized using Delly-maze and Delly-suave.")
(license license:gpl3)))
+(define-public wfmash-x86-64-v2
+ (package/inherit wfmash
+ (name "wfmash-x86-64-v2")
+ (arguments
+ (substitute-keyword-arguments (package-arguments wfmash)
+ ((#:configure-flags flags #~())
+ #~(append (list "-DEXTRA_FLAGS=-march=x86-64-v2"
+ "-DCMAKE_INSTALL_LIBDIR=lib/glibc-hwcaps/x86-64-v2"
+ (string-append "-DCMAKE_INSTALL_RPATH=" #$output
+ "/lib/glibc-hwcaps/x86-64-v2"))
+ #$flags))
+ ;; The building machine can't necessarily run the code produced.
+ ((#:tests? _ #t) #f)
+ ((#:phases phases #~%standard-phases)
+ #~(modify-phases #$phases
+ (add-after 'install 'remove-binary
+ (lambda _
+ (delete-file-recursively (string-append #$output "/bin"))))))))
+ (supported-systems '("x86_64-linux"))
+ (properties `((hidden? . #t)))))
+
+(define-public wfmash-x86-64-v3
+ (package/inherit wfmash
+ (name "wfmash-x86-64-v3")
+ (arguments
+ (substitute-keyword-arguments (package-arguments wfmash)
+ ((#:configure-flags flags #~())
+ #~(append (list "-DEXTRA_FLAGS=-march=x86-64-v3"
+ "-DCMAKE_INSTALL_LIBDIR=lib/glibc-hwcaps/x86-64-v3"
+ (string-append "-DCMAKE_INSTALL_RPATH=" #$output
+ "/lib/glibc-hwcaps/x86-64-v3"))
+ #$flags))
+ ;; The building machine can't necessarily run the code produced.
+ ((#:tests? _ #t) #f)
+ ((#:phases phases #~%standard-phases)
+ #~(modify-phases #$phases
+ (add-after 'install 'remove-binary
+ (lambda _
+ (delete-file-recursively (string-append #$output "/bin"))))))))
+ (supported-systems '("x86_64-linux"))
+ #;(properties `((hidden? . #t)))))
+
+(define-public wfmash-x86-64-v4
+ (package/inherit wfmash
+ (name "wfmash-x86-64-v4")
+ (arguments
+ (substitute-keyword-arguments (package-arguments wfmash)
+ ((#:configure-flags flags #~())
+ #~(append (list "-DEXTRA_FLAGS=-march=x86-64-v4"
+ "-DCMAKE_INSTALL_LIBDIR=lib/glibc-hwcaps/x86-64-v4"
+ (string-append "-DCMAKE_INSTALL_RPATH=" #$output
+ "/lib/glibc-hwcaps/x86-64-v4"))
+ #$flags))
+ ;; The building machine can't necessarily run the code produced.
+ ((#:tests? _ #t) #f)
+ ((#:phases phases #~%standard-phases)
+ #~(modify-phases #$phases
+ (add-after 'install 'remove-binary
+ (lambda _
+ (delete-file-recursively (string-append #$output "/bin"))))))))
+ (supported-systems '("x86_64-linux"))
+ (properties `((hidden? . #t)))))
+
+;; This copy of wfmash will automatically use the libraries that target the
+;; x86_64 psABI which the hardware supports.
+(define-public wfmash-hwcaps
+ (package/inherit wfmash
+ (name "wfmash-hwcaps")
+ (arguments
+ (substitute-keyword-arguments (package-arguments wfmash)
+ ((#:phases phases #~%standard-phases)
+ #~(modify-phases #$phases
+ (add-after 'install 'install-optimized-libraries
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ (let ((hwcaps "/lib/glibc-hwcaps"))
+ (copy-recursively
+ (string-append (assoc-ref inputs "wfmash-x86-64-v2")
+ hwcaps "/x86-64-v2")
+ (string-append #$output hwcaps "/x86-64-v2"))
+ (copy-recursively
+ (string-append (assoc-ref inputs "wfmash-x86-64-v3")
+ hwcaps "/x86-64-v3")
+ (string-append #$output hwcaps "/x86-64-v3"))
+ (copy-recursively
+ (string-append (assoc-ref inputs "wfmash-x86-64-v4")
+ hwcaps "/x86-64-v4")
+ (string-append #$output hwcaps "/x86-64-v4")))))))))
+ (native-inputs
+ (modify-inputs (package-native-inputs wfmash)
+ (append wfmash-x86-64-v2
+ wfmash-x86-64-v3
+ wfmash-x86-64-v4)))))
+
(define-public freec
(package
(name "control-freec")