r-dismo bundles pre-built jars

(define-public java-maxent

(package

(name "java-maxent")

(version "3.4.4")

(source (origin

(method git-fetch)

(uri (git-reference

(url "https://github.com/mrmaxent/Maxent")

(commit (string-append "v" version))))

(file-name (git-file-name name version))

(sha256

(base32

"12q7hhly76l77vm8w8v9icga2gn6xs0bw33a7wb7zikcmvizcyp0"))))

(build-system ant-build-system)

(arguments

(list

#:tests? #false ;there are none

#:jdk icedtea-8

#:phases

#~(modify-phases %standard-phases

(replace 'build

(lambda _

(with-directory-excursion "gnu/getopt/"

(invoke "make"))

;; See https://github.com/mrmaxent/Maxent/pull/11

(substitute* "density/Extractor.java"

(("float") "double"))

(apply invoke "javac" "-cp" (getcwd) "-g"

(find-files "density" "\\.java$"))

(apply invoke "javac" "-cp" (getcwd) "-g"

(find-files "ptolemy/plot" "\\.java$"))

(apply invoke "javac" "-cp" (getcwd) "-g"

(find-files "com" "\\.java$"))

(apply invoke "javac" "-cp" (getcwd) "-g"

(find-files "gui" "\\.java$"))

(apply invoke "jar" "cvfm" "maxent.jar"

(cons* "density/mc.mf"

"density/parameters.csv"

(append (find-files "density" "\\.class$")

(find-files "density" "\\.html$")

(find-files "gnu/getopt" ".*")

(find-files "gui/layouts" "\\.class$*")

(find-files "com/macfaq/io" "\\.class$*")

(find-files "density/tools" "\\.class$*")

(find-files "ptolemy/plot" "\\.class$*"))))))

(replace 'install

(lambda _

(install-file "maxent.jar"

(string-append #$output "/share/java/maxent/")))))))

(native-inputs

(list gnu-make))

(home-page "http://biodiversityinformatics.amnh.org/open_source/maxent")

(synopsis "Model species geographic distributions")

(description

"Maxent is a stand-alone Java application for modelling species

geographic distributions.")

(license license:expat)))