pyrox.dev
snakemake: 8.23.0 -> 8.29.0 (#385979)
Co-authored-by: emaryn <emaryn@users.noreply.github.com>
+27
-27
pkgs/by-name/sn/snakemake/package.nix
+27
-27
pkgs/by-name/sn/snakemake/package.nix
···
1
{
2
lib,
3
stdenv,
4
-
fetchPypi,
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python3Packages,
6
stress,
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versionCheckHook,
8
}:
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python3Packages.buildPythonApplication rec {
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pname = "snakemake";
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-
version = "8.23.0";
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-
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pyproject = true;
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src = fetchPypi {
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-
inherit pname version;
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hash = "sha256-XENI9VJW62KyrxDGSwQiygggYZOu9yW2QSNyp4BO9Us=";
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};
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postPatch = ''
···
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--replace-fail 'del os.environ["PYTHONPATH"]' "pass"
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substituteInPlace snakemake/unit_tests/__init__.py \
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--replace-fail '"unit_tests/templates"' '"'"$PWD"'/snakemake/unit_tests/templates"'
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'';
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build-system = with python3Packages; [
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-
setuptools
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-
];
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dependencies = with python3Packages; [
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appdirs
···
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# for the current basic test suite. Slurm, Tibanna and Tes require extra
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# setup.
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71
-
nativeCheckInputs = with python3Packages; [
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-
numpy
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-
pandas
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-
pytestCheckHook
75
-
pytest-mock
76
-
requests-mock
77
-
snakemake-executor-plugin-cluster-generic
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-
snakemake-storage-plugin-fs
79
-
stress
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-
versionCheckHook
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-
];
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versionCheckProgramArg = [ "--version" ];
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pytestFlagsArray = [
···
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"test_scopes_submitted_to_cluster"
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];
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pythonImportsCheck = [
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-
"snakemake"
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-
];
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-
147
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preCheck = ''
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-
export HOME="$(mktemp -d)"
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-
'';
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meta = {
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homepage = "https://snakemake.github.io";
···
1
{
2
lib,
3
stdenv,
4
+
fetchFromGitHub,
5
python3Packages,
6
stress,
7
versionCheckHook,
8
+
writableTmpDirAsHomeHook,
9
}:
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11
python3Packages.buildPythonApplication rec {
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pname = "snakemake";
13
+
version = "8.29.0";
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pyproject = true;
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+
src = fetchFromGitHub {
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+
owner = "snakemake";
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+
repo = "snakemake";
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+
tag = "v${version}";
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+
hash = "sha256-vGa0N5jbm+b4FH1rkvZI5yI005K0D5AP29JGK2wscps=";
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};
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postPatch = ''
···
27
--replace-fail 'del os.environ["PYTHONPATH"]' "pass"
28
substituteInPlace snakemake/unit_tests/__init__.py \
29
--replace-fail '"unit_tests/templates"' '"'"$PWD"'/snakemake/unit_tests/templates"'
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+
substituteInPlace snakemake/assets/__init__.py \
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+
--replace-fail "raise err" "return bytes('err','ascii')"
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'';
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34
+
build-system = with python3Packages; [ setuptools ];
35
36
dependencies = with python3Packages; [
37
appdirs
···
70
# for the current basic test suite. Slurm, Tibanna and Tes require extra
71
# setup.
72
73
+
nativeCheckInputs =
74
+
(with python3Packages; [
75
+
numpy
76
+
pandas
77
+
pytestCheckHook
78
+
pytest-mock
79
+
requests-mock
80
+
snakemake-executor-plugin-cluster-generic
81
+
snakemake-storage-plugin-fs
82
+
stress
83
+
versionCheckHook
84
+
polars
85
+
])
86
+
++ [ writableTmpDirAsHomeHook ];
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+
88
versionCheckProgramArg = [ "--version" ];
89
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pytestFlagsArray = [
···
146
"test_scopes_submitted_to_cluster"
147
];
148
149
+
pythonImportsCheck = [ "snakemake" ];
150
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meta = {
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homepage = "https://snakemake.github.io";