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author | Julien Lepiller <julien@lepiller.eu> | 2020-01-23 04:39:52 +0100 |
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committer | Julien Lepiller <julien@lepiller.eu> | 2020-01-27 03:56:06 +0100 |
commit | 87858bc526a9d577760f55d05a51cb56630f845b (patch) | |
tree | ef5416147d5424e54898af1cd49433236a162d3a /gnu/packages/bioinformatics.scm | |
parent | 1e8da4cdefb089ac7d2453d71f72924540238d87 (diff) | |
download | guix-87858bc526a9d577760f55d05a51cb56630f845b.tar.gz |
gnu: ocaml: Switch to ocaml 4.09 by default.
Bap and earley cannot be updated as they do not support 4.09 yet. Bap requires the janestreet packages, which cannot be upgraded as no version supports 4.09 and 4.07 at the same time. Moreover, newer versions of the janestreet packages have a different dependency graph, which will require a whole new set of packages. We cannot simply use package-with-ocaml4.07 on them. * gnu/packages/ocaml.scm (ocaml-sqlite3, ocaml-ppx-tools, ocaml-gen) (ocaml-sedlex, ocaml-pcre, ocaml-expect, ocaml-ezjsonm, ocaml-uri) (ocaml-piqilib, ocaml-piqi, ocaml-charinfo-width, ocaml-zed) (ocaml-lambda-term, ocaml-utop, ocaml-ppx-inline-test, ocaml-earley) (ocaml-merlin, ocaml-gsl, ocaml-gsl-1, ocaml-sexplib0, ocaml-parsexp) (ocaml-sexplib, ocaml-base, ocaml-stdio, ocaml-ppxlib, ocaml-ppx-compare) (ocaml-fieldslib, ocaml-variantslib, ocaml-ppx-fields-conv) (ocaml-ppx-sexp-conv, ocaml-ppx-variants-conv, ocaml-ppx-custom-printf) (ocaml-bin-prot, ocaml-ppx-hash, ocaml-ppx-enumerate, ocaml-ppx-bench) (ocaml-ppx-here, ocaml-ppx-typerep, ocaml-ppx-sexp-value) (ocaml-ppx-sexp-message, ocaml-ppx-pipebang, ocaml-ppx-optional) (ocaml-ppx-optcomp, ocaml-ppx-fail, ocaml-ppx-let, ocaml-ppx-assert) (ocaml-ppx-expect, ocaml-ppx-js-style, ocaml-ppx-typerep-conv) (ocaml-ppx-base, ocaml-ppx-bin-prot, ocaml-ppx-jane) (ocaml-splittable-random, ocaml-configurator, ocaml-spawn, ocaml-core) (ocaml-core-kernel, ocaml-odoc, ocaml-fftw3, ocaml-lacaml): Rename to ... (ocaml4.07-sqlite3, ocaml4.07-ppx-tools, ocaml4.07-gen, ocaml4.07-sedlex) (ocaml4.07-pcre, ocaml4.07-expect, ocaml4.07-ezjsonm, ocaml4.07-uri) (ocaml4.07-piqilib, ocaml4.07-piqi, ocaml4.07-charinfo-width) (ocaml4.07-zed, ocaml4.07-lambda-term, ocaml4.07-utop) (ocaml4.07-ppx-inline-test, ocaml4.07-earley, ocaml4.07-merlin) (ocaml4.07-gsl, ocaml4.07-gsl-1, ocaml4.07-sexplib0, ocaml4.07-parsexp) (ocaml4.07-sexplib, ocaml4.07-base, ocaml4.07-stdio, ocaml4.07-ppxlib) (ocaml4.07-ppx-compare, ocaml4.07-fieldslib, ocaml4.07-variantslib) (ocaml4.07-ppx-fields-conv, ocaml4.07-ppx-sexp-conv) (ocaml4.07-ppx-variants-conv, ocaml4.07-ppx-custom-printf) (ocaml4.07-bin-prot, ocaml4.07-ppx-hash, ocaml4.07-ppx-enumerate) (ocaml4.07-ppx-bench, ocaml4.07-ppx-here, ocaml4.07-ppx-typerep) (ocaml4.07-ppx-sexp-value, ocaml4.07-ppx-sexp-message) (ocaml4.07-ppx-pipebang, ocaml4.07-ppx-optional, ocaml4.07-ppx-optcomp) (ocaml4.07-ppx-fail, ocaml4.07-ppx-let, ocaml4.07-ppx-assert) (ocaml4.07-ppx-expect, ocaml4.07-ppx-js-style) (ocaml4.07-ppx-typerep-conv, ocaml4.07-ppx-base, ocaml4.07-ppx-bin-prot) (ocaml4.07-ppx-jane, ocaml4.07-splittable-random) (ocaml4.07-configurator, ocaml4.07-spawn, ocaml4.07-core) (ocaml4.07-core-kernel, ocaml4.07-odoc, ocaml4.07-fftw3) (ocaml4.07-lacaml): ... to this and use ocaml 4.07. (bap, unison): Use ocaml-4.07. * gnu/packages/bioinformatics.scm (pplacer): Use ocaml-4.07.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
-rw-r--r-- | gnu/packages/bioinformatics.scm | 22 |
1 files changed, 12 insertions, 10 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index e8dac2a12b..c71adbe98c 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -14626,21 +14626,23 @@ let before_space s = (let* ((out (assoc-ref outputs "out")) (bin (string-append out "/bin"))) (copy-recursively "bin" bin)) - #t))))) + #t))) + #:ocaml ,ocaml-4.07 + #:findlib ,ocaml4.07-findlib)) (inputs `(("zlib" ,zlib "static") ("gsl" ,gsl) - ("ocaml-ounit" ,ocaml-ounit) - ("ocaml-batteries" ,ocaml-batteries) - ("ocaml-camlzip" ,camlzip) - ("ocaml-csv" ,ocaml-csv) - ("ocaml-sqlite3" ,ocaml-sqlite3) - ("ocaml-xmlm" ,ocaml-xmlm) - ("ocaml-mcl" ,ocaml-mcl) - ("ocaml-gsl" ,ocaml-gsl-1))) + ("ocaml-ounit" ,(package-with-ocaml4.07 ocaml-ounit)) + ("ocaml-batteries" ,(package-with-ocaml4.07 ocaml-batteries)) + ("ocaml-camlzip" ,(package-with-ocaml4.07 camlzip)) + ("ocaml-csv" ,(package-with-ocaml4.07 ocaml-csv)) + ("ocaml-sqlite3" ,ocaml4.07-sqlite3) + ("ocaml-xmlm" ,(package-with-ocaml4.07 ocaml-xmlm)) + ("ocaml-mcl" ,(package-with-ocaml4.07 ocaml-mcl)) + ("ocaml-gsl" ,ocaml4.07-gsl-1))) (native-inputs `(("cddlib-src" ,(package-source cddlib)) - ("ocamlbuild" ,ocamlbuild) + ("ocamlbuild" ,(package-with-ocaml4.07 ocamlbuild)) ("pkg-config" ,pkg-config))) (propagated-inputs `(("pplacer-scripts" ,pplacer-scripts))) |