Re: [PATCH] Add vcflib.

[Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>]

Roel Janssen <roel@gnu.org> writes:
> From 3ed14719121a952fca48a8ad3426588ebb58a130 Mon Sep 17 00:00:00 2001
> From: Roel Janssen <roel@gnu.org>
> Date: Tue, 22 Mar 2016 15:57:33 +0100
> Subject: [PATCH 7/8] gnu: Add intervaltree.

> * gnu/packages/bioinformatics.scm (intervaltree): New variable.
> ---
>  gnu/packages/bioinformatics.scm | 32 ++++++++++++++++++++++++++++++++
>  1 file changed, 32 insertions(+)

> diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
> index 9cbde46..5a0eb16 100644
> --- a/gnu/packages/bioinformatics.scm
> +++ b/gnu/packages/bioinformatics.scm
> @@ -4985,3 +4985,35 @@ automatically handles index file generation and use.")
>        ;; this program is a submodule, is licensed MIT, which is the same as
>        ;; the Expat license.
>        (license (list license:gpl2 license:expat)))))
> +
> +(define-public intervaltree
> +  (let ((commit "dbb4c513d1ad3baac516fc1484c995daf9b42838"))
> +    (package
> +      (name "intervaltree")
> +      (version (string-append "0-1." (string-take commit 7)))
> +      (source (origin
> +        (method url-fetch)
> +        (uri (string-append
> +              "https://github.com/ekg/intervaltree/archive/" commit ".tar.gz"))
> +        (file-name (string-append name "-" version ".tar.gz"))
> +        (sha256
> +         (base32 "19prwpn2wxsrijp5svfqvfcxl5nj7zdhm3jycd5kqhl9nifpmcks"))))
> +      (build-system gnu-build-system)
> +      (arguments
> +       `(#:phases
> +         (modify-phases %standard-phases
> +           (delete 'configure) ; There is no configure phase.
> +           (replace 'check
> +             (lambda _
> +                (zero? (system* "./interval_tree_test"))))

The indentation looks wrong here.  Could you please double-check that
you’re not using tabs?

> +           (replace 'install
> +             (lambda* (#:key outputs #:allow-other-keys)
> +               (let ((include (string-append (assoc-ref outputs "out")
> +                                             "/include/intervaltree")))
> +                 (install-file "IntervalTree.h" include)))))))
> +      (home-page "https://github.com/ekg/intervaltree/")
> +      (synopsis "Minimal C++ interval tree implementation")
> +      (description "This library provides a basic implementation of an interval
> +tree using C++ templates, allowing the insertion of arbitrary types into the
> +tree.")
> +      (license license:expat))))

The rest looks good to me.

~~ Ricardo