1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
|
{ stdenv
, lib
, writeTextFile
, python
, sagelib
, env-locations
, gfortran
, bash
, coreutils
, gnused
, gnugrep
, binutils
, pythonEnv
, python3
, pkg-config
, pari
, gap
, ecl
, maxima-ecl
, singular
, giac
, palp
, rWrapper
, gfan
, cddlib
, jmol
, tachyon
, glpk
, eclib
, sympow
, nauty
, sqlite
, ppl
, ecm
, lcalc
, rubiks
, flintqs
, openblasCompat
, flint
, gmp
, mpfr
, pynac
, zlib
, gsl
, ntl
, jdk
, less
}:
# 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.
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
gap
ecl
maxima-ecl
singular
giac
palp
# needs to be rWrapper since the default `R` doesn't include R's default libraries
rWrapper
gfan
cddlib
jmol
tachyon
glpk
eclib
sympow
nauty
sqlite
ppl
ecm
lcalc
rubiks
flintqs
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
]
));
in
writeTextFile rec {
name = "sage-env";
destination = "/${name}";
text = ''
export PKG_CONFIG_PATH='${lib.concatStringsSep ":" (map (pkg: "${pkg}/lib/pkgconfig") [
# This is only needed in the src/sage/misc/cython.py test and I'm not
# sure if there's really a usecase for it outside of the tests. However
# since singular and openblas are runtime dependencies anyways, it doesn't
# really hurt to include.
singular
openblasCompat
])
}'
export SAGE_ROOT='${sagelib.src}'
export SAGE_LOCAL='@sage-local@'
export SAGE_SHARE='${sagelib}/share'
orig_path="$PATH"
export PATH='${runtimepath}'
# set dependent vars, like JUPYTER_CONFIG_DIR
source "${sagelib.src}/src/bin/sage-env"
export PATH="$RUNTIMEPATH_PREFIX:${runtimepath}:$orig_path" # sage-env messes with PATH
export SAGE_LOGS="$TMPDIR/sage-logs"
export SAGE_DOC="''${SAGE_DOC_OVERRIDE:-doc-placeholder}"
export SAGE_DOC_SRC="''${SAGE_DOC_SRC_OVERRIDE:-${sagelib.src}/src/doc}"
# 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${pkg}/lib") [
flint
gap
glpk
gmp
mpfr
pari
pynac
zlib
eclib
gsl
ntl
jmol
sympow
])
}'
export CFLAGS='${
lib.concatStringsSep " " (map (pkg: "-isystem ${pkg}/include") [
singular
gmp.dev
glpk
flint
gap
pynac
mpfr.dev
])
}'
export SAGE_LIB='${sagelib}/${python.sitePackages}'
export SAGE_EXTCODE='${sagelib.src}/src/ext'
# for find_library
export DYLD_LIBRARY_PATH="${lib.makeLibraryPath [stdenv.cc.libc singular]}:$DYLD_LIBRARY_PATH"
'';
} // {
lib = sagelib; # equivalent of `passthru`, which `writeTextFile` doesn't support
}
|
