prompt: You will be provided with a partial code base and an issue statement explaining a problem to resolve.
  <issue>
  Add an easy way to verify installation
  **Is your feature request related to a problem? Please describe.**
  Currently, we are asking users to run specific commands to verify installation, which can be cumbursome.
  
  **Describe the solution you'd like**
  It would be great if this could put in a script (and extended/updated as needed).
  
  **Describe alternatives you've considered**
  N.A.
  
  **Additional context**
  N.A.
  
  
  </issue>
  <code>
  [start of setup.py]
  1 #!/usr/bin/env python
  2 
  3 """The setup script."""
  4 
  5 
  6 import os
  7 from setuptools import setup, find_packages
  8 from setuptools.command.install import install
  9 from setuptools.command.develop import develop
  10 from setuptools.command.egg_info import egg_info
  11 
  12 with open("README.md") as readme_file:
  13     readme = readme_file.read()
  14 
  15 
  16 def git_submodule_update():
  17     ## submodule update
  18     os.system("git submodule update --init --recursive")
  19 
  20 
  21 class CustomInstallCommand(install):
  22     def run(self):
  23         install.run(self)
  24         git_submodule_update()
  25 
  26 
  27 class CustomDevelopCommand(develop):
  28     def run(self):
  29         develop.run(self)
  30         git_submodule_update()
  31 
  32 
  33 class CustomEggInfoCommand(egg_info):
  34     def run(self):
  35         egg_info.run(self)
  36         git_submodule_update()
  37 
  38 
  39 # read version.py
  40 import sys, re
  41 
  42 try:
  43     filepath = "GANDLF/version.py"
  44     version_file = open(filepath)
  45     (__version__,) = re.findall('__version__ = "(.*)"', version_file.read())
  46 
  47 except Exception as error:
  48     __version__ = "0.0.1"
  49     sys.stderr.write("Warning: Could not open '%s' due %s\n" % (filepath, error))
  50 
  51 requirements = [
  52     "black",
  53     "numpy==1.21.0",
  54     "scipy",
  55     "SimpleITK==2.1.0",
  56     "torch>=1.7",
  57     "torchvision",
  58     "tqdm",
  59     "torchio==0.18.57",
  60     "pandas",
  61     "pylint",
  62     "scikit-learn==0.23.1",
  63     "pickle5==0.0.11",
  64     "setuptools",
  65     "seaborn",
  66     "pyyaml",
  67     "openslide-python",
  68     "scikit-image",
  69     "matplotlib",
  70     "requests>=2.25.0",
  71     "pyvips",
  72     "pytest",
  73     "coverage",
  74     "pytest-cov",
  75     "psutil",
  76     "medcam",
  77     "opencv-python",
  78     "torchmetrics",
  79     "OpenPatchMiner==0.1.6",
  80     "pydicom",
  81 ]
  82 
  83 setup(
  84     name="GANDLF",
  85     version=__version__,
  86     author="Jose Agraz, Vinayak Ahluwalia, Bhakti Baheti, Spyridon Bakas, Ujjwal Baid, Megh Bhalerao, Brandon Edwards, Karol Gotkowski, Caleb Grenko, Orhun Güley, Ibrahim Ethem Hamamci, Sarthak Pati, Micah Sheller, Juliia Skobleva, Siddhesh Thakur, Spiros Thermos",  # alphabetical order
  87     author_email="software@cbica.upenn.edu",
  88     python_requires=">=3.6",
  89     packages=find_packages(),
  90     cmdclass={  # this ensures git_submodule_update is called during install
  91         "install": CustomInstallCommand,
  92         "develop": CustomDevelopCommand,
  93         "egg_info": CustomEggInfoCommand,
  94     },
  95     scripts=[
  96         "gandlf_run",
  97         "gandlf_constructCSV",
  98         "gandlf_collectStats",
  99         "gandlf_patchMiner",
  100         "gandlf_preprocess",
  101         "gandlf_anonymizer",
  102     ],
  103     classifiers=[
  104         "Development Status :: 3 - Alpha",
  105         "Intended Audience :: Science/Research",
  106         "License :: OSI Approved :: BSD License",
  107         "Natural Language :: English",
  108         "Operating System :: OS Independent",
  109         "Programming Language :: Python :: 3.7",
  110         "Programming Language :: Python :: 3.8",
  111         "Programming Language :: Python :: 3.9",
  112         "Topic :: Scientific/Engineering :: Medical Science Apps",
  113     ],
  114     description=(
  115         "PyTorch-based framework that handles segmentation/regression/classification using various DL architectures for medical imaging."
  116     ),
  117     install_requires=requirements,
  118     license="BSD-3-Clause License",
  119     long_description=readme,
  120     long_description_content_type="text/markdown",
  121     include_package_data=True,
  122     keywords="semantic, segmentation, regression, classification, data-augmentation, medical-imaging",
  123     zip_safe=False,
  124 )
  125 
  126 ## windows vips installation
  127 if os.name == "nt":  # proceed for windows
  128     from pathlib import Path
  129 
  130     # download and extract if main dll is absent
  131     if not Path("./vips/vips-dev-8.10/bin/libvips-42.dll").exists():
  132         print("Downloading and extracting VIPS for Windows")
  133         url = "https://github.com/libvips/libvips/releases/download/v8.10.2/vips-dev-w64-all-8.10.2.zip"
  134         zip_to_extract = "./vips.zip"
  135         import urllib.request, zipfile
  136 
  137         urllib.request.urlretrieve(url, zip_to_extract)
  138         z = zipfile.ZipFile(zip_to_extract)
  139         z.extractall("./vips")
  140         z.close()
  141         os.remove(zip_to_extract)
  142
  [end of setup.py]
  </code>
  
  I need you to solve this issue by generating a single patch file that I can apply directly to this repository using git apply. Please respond with a single patch file in the following format.
  <patch>
  diff --git a/file.py b/file.py
  --- a/file.py
  +++ b/file.py
  @@ -1,27 +1,35 @@
   def euclidean(a, b):
  -    while b:
  -        a, b = b, a % b
  -    return a
  +    if b == 0:
  +        return a
  +    return euclidean(b, a % b)
   
   
   def bresenham(x0, y0, x1, y1):
       points = []
       dx = abs(x1 - x0)
       dy = abs(y1 - y0)
  -    sx = 1 if x0 < x1 else -1
  -    sy = 1 if y0 < y1 else -1
  -    err = dx - dy
  +    x, y = x0, y0
  +    sx = -1 if x0 > x1 else 1
  +    sy = -1 if y0 > y1 else 1
   
  -    while True:
  -        points.append((x0, y0))
  -        if x0 == x1 and y0 == y1:
  -            break
  -        e2 = 2 * err
  -        if e2 > -dy:
  -            err -= dy
  -            x0 += sx
  -        if e2 < dx:
  -            err += dx
  -            y0 += sy
  +    if dx > dy:
  +        err = dx / 2.0
  +        while x != x1:
  +            points.append((x, y))
  +            err -= dy
  +            if err < 0:
  +                y += sy
  +                err += dx
  +            x += sx
  +    else:
  +        err = dy / 2.0
  +        while y != y1:
  +            points.append((x, y))
  +            err -= dx
  +            if err < 0:
  +                x += sx
  +                err += dy
  +            y += sy
  +
  +    points.append((x, y))
       return points
  
  </patch>
golden_diff: diff --git a/setup.py b/setup.py
  --- a/setup.py
  +++ b/setup.py
  @@ -99,6 +99,7 @@
           "gandlf_patchMiner",
           "gandlf_preprocess",
           "gandlf_anonymizer",
  +        "gandlf_verifyInstall",
       ],
       classifiers=[
           "Development Status :: 3 - Alpha",
  
verification_info: {"golden_diff": "diff --git a/setup.py b/setup.py\n--- a/setup.py\n+++ b/setup.py\n@@ -99,6 +99,7 @@\n         \"gandlf_patchMiner\",\n         \"gandlf_preprocess\",\n         \"gandlf_anonymizer\",\n+        \"gandlf_verifyInstall\",\n     ],\n     classifiers=[\n         \"Development Status :: 3 - Alpha\",\n", "issue": "Add an easy way to verify installation\n**Is your feature request related to a problem? Please describe.**\r\nCurrently, we are asking users to run specific commands to verify installation, which can be cumbursome.\r\n\r\n**Describe the solution you'd like**\r\nIt would be great if this could put in a script (and extended/updated as needed).\r\n\r\n**Describe alternatives you've considered**\r\nN.A.\r\n\r\n**Additional context**\r\nN.A.\r\n\n", "before_files": [{"content": "#!/usr/bin/env python\n\n\"\"\"The setup script.\"\"\"\n\n\nimport os\nfrom setuptools import setup, find_packages\nfrom setuptools.command.install import install\nfrom setuptools.command.develop import develop\nfrom setuptools.command.egg_info import egg_info\n\nwith open(\"README.md\") as readme_file:\n    readme = readme_file.read()\n\n\ndef git_submodule_update():\n    ## submodule update\n    os.system(\"git submodule update --init --recursive\")\n\n\nclass CustomInstallCommand(install):\n    def run(self):\n        install.run(self)\n        git_submodule_update()\n\n\nclass CustomDevelopCommand(develop):\n    def run(self):\n        develop.run(self)\n        git_submodule_update()\n\n\nclass CustomEggInfoCommand(egg_info):\n    def run(self):\n        egg_info.run(self)\n        git_submodule_update()\n\n\n# read version.py\nimport sys, re\n\ntry:\n    filepath = \"GANDLF/version.py\"\n    version_file = open(filepath)\n    (__version__,) = re.findall('__version__ = \"(.*)\"', version_file.read())\n\nexcept Exception as error:\n    __version__ = \"0.0.1\"\n    sys.stderr.write(\"Warning: Could not open '%s' due %s\\n\" % (filepath, error))\n\nrequirements = [\n    \"black\",\n    \"numpy==1.21.0\",\n    \"scipy\",\n    \"SimpleITK==2.1.0\",\n    \"torch>=1.7\",\n    \"torchvision\",\n    \"tqdm\",\n    \"torchio==0.18.57\",\n    \"pandas\",\n    \"pylint\",\n    \"scikit-learn==0.23.1\",\n    \"pickle5==0.0.11\",\n    \"setuptools\",\n    \"seaborn\",\n    \"pyyaml\",\n    \"openslide-python\",\n    \"scikit-image\",\n    \"matplotlib\",\n    \"requests>=2.25.0\",\n    \"pyvips\",\n    \"pytest\",\n    \"coverage\",\n    \"pytest-cov\",\n    \"psutil\",\n    \"medcam\",\n    \"opencv-python\",\n    \"torchmetrics\",\n    \"OpenPatchMiner==0.1.6\",\n    \"pydicom\",\n]\n\nsetup(\n    name=\"GANDLF\",\n    version=__version__,\n    author=\"Jose Agraz, Vinayak Ahluwalia, Bhakti Baheti, Spyridon Bakas, Ujjwal Baid, Megh Bhalerao, Brandon Edwards, Karol Gotkowski, Caleb Grenko, Orhun G\u00fcley, Ibrahim Ethem Hamamci, Sarthak Pati, Micah Sheller, Juliia Skobleva, Siddhesh Thakur, Spiros Thermos\",  # alphabetical order\n    author_email=\"software@cbica.upenn.edu\",\n    python_requires=\">=3.6\",\n    packages=find_packages(),\n    cmdclass={  # this ensures git_submodule_update is called during install\n        \"install\": CustomInstallCommand,\n        \"develop\": CustomDevelopCommand,\n        \"egg_info\": CustomEggInfoCommand,\n    },\n    scripts=[\n        \"gandlf_run\",\n        \"gandlf_constructCSV\",\n        \"gandlf_collectStats\",\n        \"gandlf_patchMiner\",\n        \"gandlf_preprocess\",\n        \"gandlf_anonymizer\",\n    ],\n    classifiers=[\n        \"Development Status :: 3 - Alpha\",\n        \"Intended Audience :: Science/Research\",\n        \"License :: OSI Approved :: BSD License\",\n        \"Natural Language :: English\",\n        \"Operating System :: OS Independent\",\n        \"Programming Language :: Python :: 3.7\",\n        \"Programming Language :: Python :: 3.8\",\n        \"Programming Language :: Python :: 3.9\",\n        \"Topic :: Scientific/Engineering :: Medical Science Apps\",\n    ],\n    description=(\n        \"PyTorch-based framework that handles segmentation/regression/classification using various DL architectures for medical imaging.\"\n    ),\n    install_requires=requirements,\n    license=\"BSD-3-Clause License\",\n    long_description=readme,\n    long_description_content_type=\"text/markdown\",\n    include_package_data=True,\n    keywords=\"semantic, segmentation, regression, classification, data-augmentation, medical-imaging\",\n    zip_safe=False,\n)\n\n## windows vips installation\nif os.name == \"nt\":  # proceed for windows\n    from pathlib import Path\n\n    # download and extract if main dll is absent\n    if not Path(\"./vips/vips-dev-8.10/bin/libvips-42.dll\").exists():\n        print(\"Downloading and extracting VIPS for Windows\")\n        url = \"https://github.com/libvips/libvips/releases/download/v8.10.2/vips-dev-w64-all-8.10.2.zip\"\n        zip_to_extract = \"./vips.zip\"\n        import urllib.request, zipfile\n\n        urllib.request.urlretrieve(url, zip_to_extract)\n        z = zipfile.ZipFile(zip_to_extract)\n        z.extractall(\"./vips\")\n        z.close()\n        os.remove(zip_to_extract)\n", "path": "setup.py"}]}