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| author | Efraim Flashner | 2023-09-24 13:06:48 +0300 |
|---|---|---|
| committer | Efraim Flashner | 2023-09-24 13:39:33 +0300 |
| commit | a295df1e9e233df66e4e70b55af01909c5cc9b06 (patch) | |
| tree | 1ce58cc1f9ae2944b3062808c846c012342877b7 /gn | |
| parent | d73c21e18365433b78ae5f92d80919ed8f6caa04 (diff) | |
| download | guix-bioinformatics-a295df1e9e233df66e4e70b55af01909c5cc9b06.tar.gz | |
smoothxg: Link with sdsl-lite
Diffstat (limited to 'gn')
| -rw-r--r-- | gn/packages/bioinformatics.scm | 15 |
1 files changed, 15 insertions, 0 deletions
diff --git a/gn/packages/bioinformatics.scm b/gn/packages/bioinformatics.scm index a043358..c833e6a 100644 --- a/gn/packages/bioinformatics.scm +++ b/gn/packages/bioinformatics.scm @@ -1705,6 +1705,19 @@ dictionaries to record a queryable version of the graph.") #~(list (string-append "CC = " #$(cc-for-target))) #:phases #~(modify-phases %standard-phases + (add-after 'unpack 'link-with-some-shared-libraries + (lambda* (#:key inputs #:allow-other-keys) + (substitute* '("CMakeLists.txt" + "deps/mmmulti/CMakeLists.txt" + "deps/odgi/deps/mmmulti/CMakeLists.txt") + (("\".*libsdsl\\.a\"") "\"-lsdsl\"") + (("\".*libdivsufsort\\.a\"") "\"-ldivsufsort\"") + (("\".*libdivsufsort64\\.a\"") "\"-ldivsufsort64\"") + (("\\$\\{sdsl-lite_INCLUDE\\}") + (search-input-directory inputs "/include/sdsl")) + (("\\$\\{sdsl-lite-divsufsort_INCLUDE\\}") + (dirname + (search-input-file inputs "/include/divsufsort.h")))))) (add-before 'build 'build-abPOA (lambda* (#:key make-flags #:allow-other-keys) ;; This helps with portability to other architectures. @@ -1715,9 +1728,11 @@ dictionaries to record a queryable version of the graph.") (apply invoke "make" "libabpoa" make-flags))))))) (inputs (list jemalloc + libdivsufsort openmpi pybind11 python + sdsl-lite zlib (list zstd "lib"))) (native-inputs |