Unverified Commit 460abae3 authored by Weijia Wang's avatar Weijia Wang Committed by GitHub
Browse files

python312Packages.bids-validator: fix build (#353943)

parents 8a47142c 65835ab8

pkgs/development/python-modules/bids-validator/default.nix

+11 −7
Original line number Diff line number Diff line
@@ -7,6 +7,9 @@ 
  # build-system

  setuptools,

  versioneer,



  # dependencies

  bidsschematools,

}:



buildPythonPackage rec {
@@ -14,7 +17,7 @@ buildPythonPackage rec { 
  version = "1.14.7.post0";

  pyproject = true;



  disabled = pythonOlder "3.7";

  disabled = pythonOlder "3.8";



  src = fetchPypi {

    pname = "bids_validator";
@@ -22,21 +25,22 @@ buildPythonPackage rec { 
    hash = "sha256-5gBaUAt1+KlhWT+2fUYIUQfa2xFvWaXDtSSqBpeUW2Y=";

  };



  nativeBuildInputs = [

  build-system = [

    setuptools

    versioneer

  ];



  # needs packages which are not available in nixpkgs

  doCheck = false;

  dependencies = [

    bidsschematools

  ];



  pythonImportsCheck = [ "bids_validator" ];



  meta = with lib; {

  meta = {

    description = "Validator for the Brain Imaging Data Structure";

    homepage = "https://github.com/bids-standard/bids-validator";

    changelog = "https://github.com/bids-standard/bids-validator/releases/tag/v${version}";

    license = licenses.mit;

    maintainers = [ ];

    license = lib.licenses.mit;

    maintainers = with lib.maintainers; [ wegank ];

  };

}

pkgs/development/python-modules/bidsschematools/default.nix

0 → 100644
+45 −0
Original line number Diff line number Diff line 
{

  lib,

  buildPythonPackage,

  pythonOlder,

  fetchPypi,

  setuptools,

  click,

  pyyaml,

  jsonschema,

}:



buildPythonPackage rec {

  pname = "bidsschematools";

  version = "0.11.3";

  pyproject = true;



  disabled = pythonOlder "3.9";



  src = fetchPypi {

    pname = "bidsschematools";

    inherit version;

    hash = "sha256-GvR3pOXXmdpjH2xdL+trhLW6ZdsTpEWUdNUlVQ4gFXo=";

  };



  build-system = [

    setuptools

  ];



  dependencies = [

    click

    pyyaml

    jsonschema

  ];



  pythonImportsCheck = [

    "bidsschematools"

  ];



  meta = {

    description = "Python tools for working with the BIDS schema";

    homepage = "https://github.com/bids-standard/bids-specification/tree/master/tools/schemacode";

    license = lib.licenses.mit;

    maintainers = with lib.maintainers; [ wegank ];

  };

}

pkgs/development/python-modules/pybids/default.nix

+7 −5
Original line number Diff line number Diff line
@@ -12,6 +12,7 @@ 
  nibabel,

  bids-validator,

  sqlalchemy,

  universal-pathlib,

  pytestCheckHook,

  versioneer,

}:
@@ -31,12 +32,12 @@ buildPythonPackage rec { 
    "sqlalchemy"

  ];



  nativeBuildInputs = [

  build-system = [

    setuptools

    versioneer

  ] ++ versioneer.optional-dependencies.toml;



  propagatedBuildInputs = [

  dependencies = [

    bids-validator

    click

    formulaic
@@ -46,6 +47,7 @@ buildPythonPackage rec { 
    pandas

    scipy

    sqlalchemy

    universal-pathlib

  ];



  pythonImportsCheck = [ "bids" ];
@@ -64,12 +66,12 @@ buildPythonPackage rec { 
    "test_to_df"

  ];



  meta = with lib; {

  meta = {

    description = "Python tools for querying and manipulating BIDS datasets";

    homepage = "https://github.com/bids-standard/pybids";

    changelog = "https://github.com/bids-standard/pybids/blob/${version}/CHANGELOG.rst";

    license = licenses.mit;

    maintainers = [ ];

    license = lib.licenses.mit;

    maintainers = with lib.maintainers; [ wegank ];

    mainProgram = "pybids";

  };

}

pkgs/development/python-modules/templateflow/default.nix

+15 −3
Original line number Diff line number Diff line
@@ -4,6 +4,8 @@ 
  fetchFromGitHub,

  pythonOlder,

  setuptools-scm,

  hatchling,

  hatch-vcs,

  nipreps-versions,

  pybids,

  requests,
@@ -24,8 +26,13 @@ buildPythonPackage rec { 
    hash = "sha256-COS767n2aC65m6AJihZb4NhJ4ZK9YkTAZR7Hcnc/LMs=";

  };



  nativeBuildInputs = [ setuptools-scm ];

  propagatedBuildInputs = [

  build-system = [

    setuptools-scm

    hatchling

    hatch-vcs

  ];



  dependencies = [

    nipreps-versions

    pybids

    requests
@@ -33,7 +40,12 @@ buildPythonPackage rec { 
  ];



  doCheck = false; # most tests try to download data

  #pythonImportsCheck = [ "templateflow" ];  # touches $HOME/.cache, hence needs https://github.com/NixOS/nixpkgs/pull/120300



  postFixup = ''

    export HOME=$(mktemp -d)

  '';



  pythonImportsCheck = [ "templateflow" ];



  meta = with lib; {

    homepage = "https://templateflow.org/python-client";

pkgs/top-level/python-packages.nix

+2 −0
Original line number Diff line number Diff line
@@ -1603,6 +1603,8 @@ self: super: with self; { 














  bids-validator = callPackage ../development/python-modules/bids-validator { };



























  bidsschematools = callPackage ../development/python-modules/bidsschematools { };



























  biliass = callPackage ../development/python-modules/biliass { };





























  bilibili-api-python = callPackage ../development/python-modules/bilibili-api-python { };