2020-04-24 23:36:52 +00:00
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{ stdenv
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, lib
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, writeTextFile
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, python
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, sagelib
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, env-locations
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, gfortran
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, bash
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, coreutils
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, gnused
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, gnugrep
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, binutils
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, pythonEnv
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, python3
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, pkg-config
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, pari
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, gap
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, ecl
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, maxima-ecl
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, singular
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, fflas-ffpack
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, givaro
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, gd
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, libpng
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, linbox
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, m4ri
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, giac
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, palp
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, rWrapper
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, gfan
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, cddlib
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, jmol
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, tachyon
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, glpk
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, eclib
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, sympow
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, nauty
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, sqlite
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, ppl
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, ecm
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, lcalc
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, rubiks
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, flintqs
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, blas
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, lapack
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, flint
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, gmp
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, mpfr
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, pynac
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, zlib
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, gsl
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, ntl
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2020-09-25 04:45:31 +00:00
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, jdk8
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2020-04-24 23:36:52 +00:00
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, less
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}:
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assert (!blas.isILP64) && (!lapack.isILP64);
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# This generates a `sage-env` shell file that will be sourced by sage on startup.
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# It sets up various environment variables, telling sage where to find its
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# dependencies.
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let
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2020-09-25 04:45:31 +00:00
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jdk = jdk8; # TODO: remove override https://github.com/NixOS/nixpkgs/pull/89731
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2020-04-24 23:36:52 +00:00
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runtimepath = (lib.makeBinPath ([
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"@sage-local@"
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"@sage-local@/build"
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pythonEnv
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# empty python env to add python wrapper that clears PYTHONHOME (see
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# wrapper.nix). This is necessary because sage will call the python3 binary
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# (from python2 code). The python2 PYTHONHOME (again set in wrapper.nix)
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# will then confuse python3, if it is not overwritten.
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python3.buildEnv
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gfortran # for inline fortran
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stdenv.cc # for cython
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bash
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coreutils
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gnused
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gnugrep
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binutils.bintools
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pkg-config
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pari
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gap
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ecl
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maxima-ecl
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singular
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giac
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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
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gfan
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cddlib
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jmol
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tachyon
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glpk
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eclib
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sympow
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nauty
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sqlite
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ppl
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ecm
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lcalc
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rubiks
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flintqs
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jdk # only needed for `jmol` which may be replaced in the future
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less # needed to prevent transient test errors until https://github.com/ipython/ipython/pull/11864 is resolved
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]
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));
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in
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writeTextFile rec {
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name = "sage-env";
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destination = "/${name}";
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text = ''
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export PKG_CONFIG_PATH='${lib.makeSearchPathOutput "dev" "lib/pkgconfig" [
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# This should only be needed during build. However, since the doctests
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# also test the cython build (for example in src/sage/misc/cython.py),
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# it is also needed for the testsuite to pass. We could fix the
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# testsuite instead, but since all the packages are also runtime
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# dependencies it doesn't really hurt to include them here.
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singular
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blas lapack
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fflas-ffpack givaro
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gd
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libpng zlib
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gsl
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linbox
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m4ri
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]
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}'
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export SAGE_ROOT='${sagelib.src}'
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export SAGE_LOCAL='@sage-local@'
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export SAGE_SHARE='${sagelib}/share'
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orig_path="$PATH"
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export PATH='${runtimepath}'
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# 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="$TMPDIR/sage-logs"
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export SAGE_DOC="''${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
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. ${env-locations}/sage-env-locations
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# needed for cython
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export CC='${stdenv.cc}/bin/${stdenv.cc.targetPrefix}cc'
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# cython needs to find these libraries, otherwise will fail with `ld: cannot find -lflint` or similar
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export LDFLAGS='${
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lib.concatStringsSep " " (map (pkg: "-L${pkg}/lib") [
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flint
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gap
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glpk
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gmp
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mpfr
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pari
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pynac
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zlib
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eclib
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gsl
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ntl
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jmol
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sympow
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])
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}'
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export CFLAGS='${
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lib.concatStringsSep " " (map (pkg: "-isystem ${pkg}/include") [
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singular
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gmp.dev
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glpk
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flint
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gap
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pynac
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mpfr.dev
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])
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}'
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export SAGE_LIB='${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:+:}$DYLD_LIBRARY_PATH"
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'';
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} // {
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lib = sagelib; # equivalent of `passthru`, which `writeTextFile` doesn't support
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}
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