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argo
argopkgs
Commits
d365065f
Commit
d365065f
authored
Feb 18, 2019
by
Valentin Reis
Browse files
adds jupyter shell environment.
parent
402eea61
Pipeline
#5449
passed with stages
in 1 minute and 11 seconds
Changes
2
Pipelines
1
Hide whitespace changes
Inline
Side-by-side
pkgs/default.nix
View file @
d365065f
...
...
@@ -30,26 +30,26 @@
}:
let
callPackage
=
pkgs
.
lib
.
callPackageWith
(
pkgs
//
argopkgs
);
argopkgs
=
rec
{
# library of nix expressions
argolib
=
import
../lib/utils.nix
;
# Argo components (source overridabel via argument)
aml
=
callPackage
./aml
{
src
=
aml-src
;};
nrm
=
callPackage
./nrm
{
src
=
nrm-src
;};
containers
=
callPackage
./containers
{
src
=
containers-src
;};
libnrm
=
callPackage
./libnrm
{
src
=
libnrm-src
;};
aml
=
callPackage
./aml
{
src
=
aml-src
;};
nrm
=
callPackage
./nrm
{
src
=
nrm-src
;};
containers
=
callPackage
./containers
{
src
=
containers-src
;};
libnrm
=
callPackage
./libnrm
{
src
=
libnrm-src
;};
libnrm-pmpi
=
libnrm
.
overrideAttrs
(
oldAttrs
:
rec
{
configureFlags
=
"--enable-pmpi"
;
buildInputs
=
oldAttrs
.
buildInputs
++
[
pkgs
.
mpich2
];
});
# applications (source overridable via argument)
amg
=
callPackage
./amg
{
nrmSupport
=
true
;
src
=
amg-src
;
};
qmcpack
=
callPackage
./qmcpack
{
nrmSupport
=
true
;
src
=
qmcpack-src
;
};
openmc
=
callPackage
./openmc
{
nrmSupport
=
true
;
src
=
openmc-src
;
};
stream
=
callPackage
./stream
{
nrmSupport
=
true
;
src
=
stream-src
;
};
lammps
=
callPackage
./lammps
{
nrmSupport
=
true
;
src
=
lammps-src
;
};
amg
=
callPackage
./amg
{
nrmSupport
=
true
;
src
=
amg-src
;};
qmcpack
=
callPackage
./qmcpack
{
nrmSupport
=
true
;
src
=
qmcpack-src
;};
openmc
=
callPackage
./openmc
{
nrmSupport
=
true
;
src
=
openmc-src
;};
stream
=
callPackage
./stream
{
nrmSupport
=
true
;
src
=
stream-src
;};
lammps
=
callPackage
./lammps
{
nrmSupport
=
true
;
src
=
lammps-src
;};
# data (static, non source overridable via arguments)
openmc-data
=
fetched
openmc/data.json
;
...
...
@@ -108,32 +108,32 @@ let
#zmcat = pkgs-stable.haskellPackages.callPackage ./tools/zmcat {};
# ci/experimental environments
testBuildInputs
=
[
# argotk runs mpiexec:
pkgs
.
mpich2
# argotk uses hwloc to choose CPU counts:
pkgs
.
hwloc
# these are needed for some reason:
pkgs
.
coreutils
pkgs
.
utillinux
pkgs
.
git
# argo tools
argotk
# argo components
containers
nrm
];
test
=
pkgs
.
stdenv
.
mkDerivation
rec
{
name
=
"testEnv"
;
buildInputs
=
testBuildInputs
++
[
stream
];
#required to be able to build the drv.
installPhase
=
"mkdir $out"
;
unpackPhase
=
"true"
;
__noChroot
=
true
;
buildInputs
=
[
# argotk runs mpiexec:
pkgs
.
mpich2
# argotk uses hwloc to choose CPU counts:
pkgs
.
hwloc
# these are needed for some reason:
pkgs
.
coreutils
pkgs
.
utillinux
pkgs
.
git
# argo tools
argotk
# argo components
containers
nrm
# sample application for testing progress reports:
(
stream
.
override
{
libnrm
=
libnrm
;
iterationCount
=
"20"
;})
];
shellHook
=
''
echo ""
echo "ENTERING ENVIRONMENT: Sources of impurity for this build are: /tmp/ /etc/argo/ /var/run/ /var/lock/".
...
...
@@ -143,17 +143,23 @@ let
source
${
argotk
}
/share/argotk.sh # bash completion
echo ""
''
;
#
for
argotk
to find its versioned data
#argotk
uses this environment variable.
ARGOTK_SHARE
=
"
${
argotk
}
/share"
;
#SUDO = builtins.toPath sudoPath;
};
expe
=
test
.
overrideAttrs
(
old
:{
buildInputs
=
old
.
buildInputs
++
[
buildInputs
=
testBuildInputs
++
[
#debug tools
pkgs
.
which
#experiment tools
zymake
#applications
(
stream
.
override
{
iterationCount
=
"20000"
;})
amg
lammps
qmcpack
(
stream
.
override
{
iterationCount
=
"2000000"
;})
openmc
openmc-data
];
...
...
@@ -161,6 +167,30 @@ let
OPENMC_PWD
=
"
${
argotk
}
/share/openmc"
;
});
jupyter
=
let
jupyter
=
import
(
fetched
jupyter/pin.json
)
{};
in
(
jupyter
.
jupyterlabWith
{
kernels
=
[
(
jupyter
.
kernels
.
juniperWith
{
name
=
"analysis"
;
packages
=
p
:
with
p
;
[
ggplot2
pkgs
.
which
docopt
knitr
cowplot
lubridate
dplyr
ggplot2
xtable
ggthemes
data_table
];
})
];
})
.
env
;
doArgotk
=
command
:
test
.
overrideAttrs
(
old
:{
buildPhase
=
"argotk "
+
command
;
installPhase
=
''
...
...
pkgs/jupyter/pin.json
0 → 100644
View file @
d365065f
{
"fetch"
:
{
"args"
:
{
"fetchSubmodules"
:
false
,
"rev"
:
"3bbe91d6d0bd4526cc70b6ebcfa0871432dff329"
,
"sha256"
:
"04nx4rpvc96l1impv1j75acdpji3p77iszkkgkp7pi8xfrq6hrwg"
,
"url"
:
"https://github.com/tweag/jupyterWith.git"
},
"fn"
:
"fetchgit"
},
"rev"
:
"refs/heads/master"
,
"type"
:
"fetchgit"
,
"url"
:
"https://github.com/tweag/jupyterWith.git"
}
\ No newline at end of file
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