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nixpkgs/pkgs/applications/science/math/sage/sage-env.nix

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{ stdenv
, lib
, writeTextFile
, python
, sagelib
, env-locations
, gfortran
, bash
, coreutils
, gnused
, gnugrep
, binutils
, pythonEnv
, python3
, pkg-config
, pari
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, gap
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, ecl
, maxima-ecl
, singular
, giac
, palp
, rWrapper
, gfan
, cddlib
, jmol
, tachyon
, glpk
, eclib
, sympow
, nauty
, sqlite
, ppl
, ecm
, lcalc
, rubiks
, flintqs
, openblasCompat
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, flint
, gmp
, mpfr
, pynac
, zlib
, gsl
, ntl
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, jdk
, less
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}:
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# This generates a `sage-env` shell file that will be sourced by sage on startup.
# It sets up various environment variables, telling sage where to find its
# dependencies.
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let
runtimepath = (lib.makeBinPath ([
"@sage-local@"
"@sage-local@/build"
pythonEnv
# empty python env to add python wrapper that clears PYTHONHOME (see
# wrapper.nix). This is necessary because sage will call the python3 binary
# (from python2 code). The python2 PYTHONHOME (again set in wrapper.nix)
# will then confuse python3, if it is not overwritten.
python3.buildEnv
gfortran # for inline fortran
stdenv.cc # for cython
bash
coreutils
gnused
gnugrep
binutils.bintools
pkg-config
pari
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gap
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ecl
maxima-ecl
singular
giac
palp
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# needs to be rWrapper since the default `R` doesn't include R's default libraries
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rWrapper
gfan
cddlib
jmol
tachyon
glpk
eclib
sympow
nauty
sqlite
ppl
ecm
lcalc
rubiks
flintqs
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jdk # only needed for `jmol` which may be replaced in the future
less # needed to prevent transient test errors until https://github.com/ipython/ipython/pull/11864 is resolved
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]
));
in
writeTextFile rec {
name = "sage-env";
destination = "/${name}";
text = ''
export PKG_CONFIG_PATH='${lib.concatStringsSep ":" (map (pkg: "${pkg}/lib/pkgconfig") [
# This is only needed in the src/sage/misc/cython.py test and I'm not
# sure if there's really a usecase for it outside of the tests. However
# since singular and openblas are runtime dependencies anyways, it doesn't
# really hurt to include.
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singular
openblasCompat
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])
}'
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export SAGE_ROOT='${sagelib.src}'
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export SAGE_LOCAL='@sage-local@'
export SAGE_SHARE='${sagelib}/share'
orig_path="$PATH"
export PATH='${runtimepath}'
# set dependent vars, like JUPYTER_CONFIG_DIR
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source "${sagelib.src}/src/bin/sage-env"
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export PATH="$RUNTIMEPATH_PREFIX:${runtimepath}:$orig_path" # sage-env messes with PATH
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export SAGE_LOGS="$TMPDIR/sage-logs"
export SAGE_DOC="''${SAGE_DOC_OVERRIDE:-doc-placeholder}"
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export SAGE_DOC_SRC="''${SAGE_DOC_SRC_OVERRIDE:-${sagelib.src}/src/doc}"
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# set locations of dependencies
. ${env-locations}/sage-env-locations
# needed for cython
export CC='${stdenv.cc}/bin/${stdenv.cc.targetPrefix}cc'
# cython needs to find these libraries, otherwise will fail with `ld: cannot find -lflint` or similar
export LDFLAGS='${
lib.concatStringsSep " " (map (pkg: "-L${pkg}/lib") [
flint
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gap
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glpk
gmp
mpfr
pari
pynac
zlib
eclib
gsl
ntl
jmol
sympow
])
}'
export CFLAGS='${
lib.concatStringsSep " " (map (pkg: "-isystem ${pkg}/include") [
singular
gmp.dev
glpk
flint
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gap
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pynac
mpfr.dev
])
}'
export SAGE_LIB='${sagelib}/${python.sitePackages}'
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export SAGE_EXTCODE='${sagelib.src}/src/ext'
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# for find_library
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export DYLD_LIBRARY_PATH="${lib.makeLibraryPath [stdenv.cc.libc singular]}:$DYLD_LIBRARY_PATH"
'';
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} // {
lib = sagelib; # equivalent of `passthru`, which `writeTextFile` doesn't support
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}