{
    "file_diffs": [
        {
            "old_file_content": "# emacs: -*- mode: python; py-indent-offset: 4; tab-width: 4; indent-tabs-mode: nil -*-\n# ex: set sts=4 ts=4 sw=4 noet:\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n#\n#   See COPYING file distributed along with the datalad package for the\n#   copyright and license terms.\n#\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n\"\"\"Test testing utilities\n\n\"\"\"\n\nimport os\nimport shutil\nimport sys\nimport logging\nfrom mock import patch\nfrom six import PY3\n\nfrom operator import itemgetter\nfrom os.path import dirname, normpath, pardir, basename\nfrom os.path import isabs, expandvars, expanduser\nfrom collections import OrderedDict\n\nfrom ..dochelpers import exc_str\nfrom ..utils import updated\nfrom os.path import join as opj, abspath, exists\nfrom ..utils import rotree, swallow_outputs, swallow_logs, setup_exceptionhook, md5sum\nfrom ..utils import getpwd, chpwd\nfrom ..utils import auto_repr\nfrom ..utils import find_files\nfrom ..utils import line_profile\nfrom ..utils import not_supported_on_windows\nfrom ..utils import file_basename\nfrom ..utils import expandpath, is_explicit_path\nfrom ..utils import knows_annex\nfrom ..utils import any_re_search\nfrom ..utils import unique\nfrom ..utils import get_func_kwargs_doc\nfrom ..utils import make_tempfile\nfrom ..utils import on_windows\nfrom ..utils import _path_\nfrom ..utils import get_timestamp_suffix\n\nfrom ..support.annexrepo import AnnexRepo\n\nfrom nose.tools import ok_, eq_, assert_false, assert_equal, assert_true\n\nfrom .utils import with_tempfile, assert_in, with_tree\nfrom .utils import SkipTest\nfrom .utils import assert_cwd_unchanged, skip_if_on_windows\nfrom .utils import assure_dict_from_str, assure_list_from_str\nfrom .utils import ok_generator\nfrom .utils import assert_not_in\nfrom .utils import assert_raises\nfrom .utils import ok_startswith\nfrom .utils import skip_if_no_module\n\n\ndef test_get_func_kwargs_doc():\n    def some_func(arg1, kwarg1=None, kwarg2=\"bu\"):\n        return\n    eq_(get_func_kwargs_doc(some_func), ['arg1', 'kwarg1', 'kwarg2'])\n\n\n@with_tempfile(mkdir=True)\ndef test_rotree(d):\n    d2 = opj(d, 'd1', 'd2')  # deep nested directory\n    f = opj(d2, 'f1')\n    os.makedirs(d2)\n    with open(f, 'w') as f_:\n        f_.write(\"LOAD\")\n    with swallow_logs():\n        ar = AnnexRepo(d2)\n    rotree(d)\n    # we shouldn't be able to delete anything UNLESS in \"crippled\" situation:\n    # root, or filesystem is FAT etc\n    # Theoretically annex should declare FS as crippled when ran as root, but\n    # see http://git-annex.branchable.com/bugs/decides_that_FS_is_crippled_under_cowbuilder___40__symlinks_supported_etc__41__/#comment-60c3cbe2710d6865fb9b7d6e247cd7aa\n    # so explicit 'or'\n    if not (ar.is_crippled_fs() or (os.getuid() == 0)):\n        assert_raises(OSError, os.unlink, f)\n        assert_raises(OSError, shutil.rmtree, d)\n        # but file should still be accessible\n        with open(f) as f_:\n            eq_(f_.read(), \"LOAD\")\n    # make it RW\n    rotree(d, False)\n    os.unlink(f)\n    shutil.rmtree(d)\n\n\ndef test_swallow_outputs():\n    with swallow_outputs() as cm:\n        eq_(cm.out, '')\n        sys.stdout.write(\"out normal\")\n        sys.stderr.write(\"out error\")\n        eq_(cm.out, 'out normal')\n        sys.stdout.write(\" and more\")\n        eq_(cm.out, 'out normal and more')  # incremental\n        eq_(cm.err, 'out error')\n        eq_(cm.err, 'out error')  # the same value if multiple times\n\n\n@with_tempfile\ndef test_swallow_logs(logfile):\n    lgr = logging.getLogger('datalad')\n    with swallow_logs(new_level=9) as cm:\n        eq_(cm.out, '')\n        lgr.log(8, \"very heavy debug\")\n        eq_(cm.out, '')  # not even visible at level 9\n        lgr.log(9, \"debug1\")\n        eq_(cm.out, 'debug1\\n')  # not even visible at level 9\n        lgr.info(\"info\")\n        eq_(cm.out, 'debug1\\ninfo\\n')  # not even visible at level 9\n    with swallow_logs(new_level=9, file_=logfile) as cm:\n        eq_(cm.out, '')\n        lgr.info(\"next info\")\n    from datalad.tests.utils import ok_file_has_content\n    ok_file_has_content(logfile, \"next info\", strip=True)\n\n\ndef test_swallow_logs_assert():\n    lgr = logging.getLogger('datalad.tests')\n    with swallow_logs(new_level=9) as cm:\n        # nothing was logged so should fail\n        assert_raises(AssertionError, cm.assert_logged)\n        lgr.info(\"something\")\n        cm.assert_logged(\"something\")\n        cm.assert_logged(level=\"INFO\")\n        cm.assert_logged(\"something\", level=\"INFO\")\n        assert_raises(AssertionError,\n                      cm.assert_logged, \"something\", level=\"DEBUG\")\n        assert_raises(AssertionError, cm.assert_logged, \"else\")\n\n        cm.assert_logged(\"some.hing\", level=\"INFO\")  # regex ;-)\n        # does match\n        assert_raises(AssertionError,\n                      cm.assert_logged, \"ome.hing\", level=\"INFO\")\n        # but we can change it\n        cm.assert_logged(\"some.hing\", level=\"INFO\", match=False)\n    # and we can continue doing checks after we left the cm block\n    cm.assert_logged(\"some.hing\", level=\"INFO\", match=False)\n\n\ndef _check_setup_exceptionhook(interactive):\n    old_exceptionhook = sys.excepthook\n\n    post_mortem_tb = []\n\n    def our_post_mortem(tb):\n        post_mortem_tb.append(tb)\n\n    with patch('sys.excepthook'), \\\n            patch('datalad.utils.is_interactive', lambda: interactive), \\\n            patch('pdb.post_mortem', our_post_mortem):\n        setup_exceptionhook()\n        our_exceptionhook = sys.excepthook\n        ok_(old_exceptionhook != our_exceptionhook)\n        #out = sys.stdout\n        with swallow_logs() as cml, swallow_outputs() as cmo:\n            # we need to call our_exceptionhook explicitly b/c nose\n            # swallows all Exceptions and hook never gets executed\n            try:\n                raise RuntimeError\n            except Exception as e:  # RuntimeError:\n                type_, value_, tb_ = sys.exc_info()\n            our_exceptionhook(type_, value_, tb_)\n            if PY3:\n                # Happens under tox environment but not in manually crafted ones -- not yet sure\n                # what it is about but --dbg does work with python3 so lettting it skip for now\n                raise SkipTest(\"TODO: Not clear why in PY3 calls cleanup if we try to access the beast\")\n            assert_in('Traceback (most recent call last)', cmo.err)\n            assert_in('in _check_setup_exceptionhook', cmo.err)\n            if interactive:\n                assert_equal(post_mortem_tb[0], tb_)\n            else:\n                assert_equal(post_mortem_tb, [])\n                # assert_in('We cannot setup exception hook', cml.out)\n\n    eq_(old_exceptionhook, sys.excepthook)\n\n\ndef test_setup_exceptionhook():\n    for tval in [True, False]:\n        yield _check_setup_exceptionhook, tval\n\n\ndef test_md5sum():\n    # just a smoke (encoding/decoding) test for md5sum\n    _ = md5sum(__file__)\n\n\n@with_tree([('1.tar.gz', (('1 f.txt', '1 f load'),))])\ndef test_md5sum_archive(d):\n    # just a smoke (encoding/decoding) test for md5sum\n    _ = md5sum(opj(d, '1.tar.gz'))\n\ndef test_updated():\n    d = {}\n    eq_(updated(d, {1: 2}), {1: 2})\n    eq_(d, {})\n\n    d = {'a': 'b'}\n    eq_(updated(d, ((0, 1), (2, 3))), {0: 1, 'a': 'b', 2: 3})\n    eq_(d, {'a': 'b'})\n\n    # and that it would maintain the type\n    d = OrderedDict(((99, 0), ('z', 0), ('a', 0)))\n    d_ = updated(d, {0: 1})\n    ok_(isinstance(d_, OrderedDict))\n    eq_(d_, OrderedDict(((99, 0), ('z', 0), ('a', 0), (0, 1))))\n\n\ndef test_get_local_file_url_windows():\n    raise SkipTest(\"TODO\")\n\n@assert_cwd_unchanged\ndef test_getpwd_basic():\n    pwd = getpwd()\n    ok_(isabs(pwd))\n    eq_(os.getcwd(), abspath(pwd))\n\n    # that we do not chdir anywhere if None provided\n    with patch('os.chdir') as oschdir:\n        with chpwd(None):\n            eq_(getpwd(), pwd)\n        assert_false(oschdir.called)\n\n\n@skip_if_on_windows\n@with_tempfile(mkdir=True)\n@assert_cwd_unchanged\ndef test_getpwd_symlink(tdir):\n    sdir = opj(tdir, 's1')\n    pwd_orig = getpwd()\n    os.symlink('.', sdir)\n    s1dir = opj(sdir, 's1')\n    s2dir = opj(sdir, 's2')\n    try:\n        chpwd(sdir)\n        pwd = getpwd()\n        eq_(pwd, sdir)\n        chpwd('s1')\n        eq_(getpwd(), s1dir)\n        chpwd('.')\n        eq_(getpwd(), s1dir)\n        chpwd('..')\n        eq_(getpwd(), sdir)\n    finally:\n        chpwd(pwd_orig)\n\n    # test context handler way of use\n    with chpwd(s1dir):\n        eq_(getpwd(), s1dir)\n    eq_(getpwd(), pwd_orig)\n\n    assert_false(exists(s2dir))\n    with assert_raises(OSError):\n        with chpwd(s2dir):\n            pass\n    with chpwd(s2dir, mkdir=True):\n        ok_(exists(s2dir))\n        eq_(getpwd(), s2dir)\n\n\ndef test_auto_repr():\n\n    class withoutrepr:\n        def __init__(self):\n            self.a = \"does not matter\"\n\n    @auto_repr\n    class buga:\n        def __init__(self):\n            self.a = 1\n            self.b = list(range(100))\n            self.c = withoutrepr()\n            self._c = \"protect me\"\n\n        def some(self):\n            return \"some\"\n\n    assert_equal(repr(buga()), \"buga(a=1, b=<<[0, 1, 2, 3, 4, 5, 6, ...>>, c=<withoutrepr>)\")\n    assert_equal(buga().some(), \"some\")\n\n\ndef test_assure_list_from_str():\n    assert_equal(assure_list_from_str(''), None)\n    assert_equal(assure_list_from_str([]), None)\n    assert_equal(assure_list_from_str('somestring'), ['somestring'])\n    assert_equal(assure_list_from_str('some\\nmultiline\\nstring'), ['some', 'multiline', 'string'])\n    assert_equal(assure_list_from_str(['something']), ['something'])\n    assert_equal(assure_list_from_str(['a', 'listof', 'stuff']), ['a', 'listof', 'stuff'])\n\n\ndef test_assure_dict_from_str():\n    assert_equal(assure_dict_from_str(''), None)\n    assert_equal(assure_dict_from_str({}), None)\n    assert_equal(assure_dict_from_str(\n            '__ac_name={user}\\n__ac_password={password}\\nsubmit=Log in\\ncookies_enabled='), dict(\n             __ac_name='{user}', __ac_password='{password}', cookies_enabled='', submit='Log in'))\n    assert_equal(assure_dict_from_str(\n        dict(__ac_name='{user}', __ac_password='{password}', cookies_enabled='', submit='Log in')), dict(\n             __ac_name='{user}', __ac_password='{password}', cookies_enabled='', submit='Log in'))\n\n\ndef test_any_re_search():\n    assert_true(any_re_search('a', 'a'))\n    assert_true(any_re_search('a', 'bab'))\n    assert_false(any_re_search('^a', 'bab'))\n    assert_true(any_re_search(['b', '.ab'], 'bab'))\n    assert_false(any_re_search(['^b', 'bab'], 'ab'))\n\n\ndef test_find_files():\n    tests_dir = dirname(__file__)\n    proj_dir = normpath(opj(dirname(__file__), pardir))\n\n    ff = find_files('.*', proj_dir)\n    ok_generator(ff)\n    files = list(ff)\n    assert(len(files) > 10)  # we have more than 10 test files here\n    assert_in(opj(tests_dir, 'test_utils.py'), files)\n    # and no directories should be mentioned\n    assert_not_in(tests_dir, files)\n\n    ff2 = find_files('.*', proj_dir, dirs=True)\n    files2 = list(ff2)\n    assert_in(opj(tests_dir, 'test_utils.py'), files2)\n    assert_in(tests_dir, files2)\n\n    # now actually matching the path\n    ff3 = find_files('.*/test_.*\\.py$', proj_dir, dirs=True)\n    files3 = list(ff3)\n    assert_in(opj(tests_dir, 'test_utils.py'), files3)\n    assert_not_in(tests_dir, files3)\n    for f in files3:\n        ok_startswith(basename(f), 'test_')\n\nfrom .utils import with_tree\n@with_tree(tree={\n    '.git': {\n        '1': '2'\n    },\n    'd1': {\n        '.git': 'possibly a link from submodule'\n    },\n    'git': 'just a file'\n})\ndef test_find_files_exclude_vcs(repo):\n    ff = find_files('.*', repo, dirs=True)\n    files = list(ff)\n    assert_equal({basename(f) for f in files}, {'d1', 'git'})\n    assert_not_in(opj(repo, '.git'), files)\n\n    ff = find_files('.*', repo, dirs=True, exclude_vcs=False)\n    files = list(ff)\n    assert_equal({basename(f) for f in files}, {'d1', 'git', '.git', '1'})\n    assert_in(opj(repo, '.git'), files)\n\n\ndef test_line_profile():\n    skip_if_no_module('line_profiler')\n\n    @line_profile\n    def f(j):\n        i = j + 1  # xyz\n        return i\n\n    with swallow_outputs() as cmo:\n        assert_equal(f(3), 4)\n        assert_equal(cmo.err, '')\n        assert_in('i = j + 1  # xyz', cmo.out)\n\n\ndef test_not_supported_on_windows():\n    with patch('datalad.utils.on_windows', True):\n        assert_raises(NotImplementedError, not_supported_on_windows)\n        assert_raises(NotImplementedError, not_supported_on_windows, \"msg\")\n\n    with patch('datalad.utils.on_windows', False):\n        assert_equal(not_supported_on_windows(), None)\n        assert_equal(not_supported_on_windows(\"msg\"), None)\n\n\ndef test_file_basename():\n    eq_(file_basename('1'), '1')\n    eq_(file_basename('d1/1'), '1')\n    eq_(file_basename('/d1/1'), '1')\n    eq_(file_basename('1.'), '1.')\n    eq_(file_basename('1.tar.gz'), '1')\n    eq_(file_basename('1.Tar.gz'), '1')\n    eq_(file_basename('1._bak.gz'), '1')\n    eq_(file_basename('1.tar.gz', return_ext=True), ('1', 'tar.gz'))\n    eq_(file_basename('/tmp/1.tar.gz'), '1')\n    eq_(file_basename('/tmp/1.longish.gz'), '1.longish')\n    eq_(file_basename('1_R1.1.1.tar.gz'), '1_R1.1.1')\n    eq_(file_basename('ds202_R1.1.1.tgz'), 'ds202_R1.1.1')\n\n\ndef test_expandpath():\n    eq_(expandpath(\"some\", False), expanduser('some'))\n    eq_(expandpath(\"some\", False), expandvars('some'))\n    assert_true(isabs(expandpath('some')))\n    # this may have to go because of platform issues\n    eq_(expandpath(\"$HOME\"), expanduser('~'))\n\n\ndef test_is_explicit_path():\n    # by default expanded paths are absolute, hence explicit\n    assert_true(is_explicit_path(expandpath('~')))\n    assert_false(is_explicit_path(\"here\"))\n\n\n@with_tempfile\n@with_tempfile\ndef test_knows_annex(here, there):\n    from datalad.support.gitrepo import GitRepo\n    from datalad.support.annexrepo import AnnexRepo\n    GitRepo(path=here, create=True)\n    assert_false(knows_annex(here))\n    AnnexRepo(path=here, create=True)\n    assert_true(knows_annex(here))\n    GitRepo(path=there, url=here, create=True)\n    assert_true(knows_annex(there))\n\n\ndef test_make_tempfile():\n    # check if mkdir, content conflict caught\n    with assert_raises(ValueError):\n        with make_tempfile(content=\"blah\", mkdir=True):  # pragma: no cover\n            pass\n\n\ndef test_unique():\n    eq_(unique(range(3)), [0, 1, 2])\n    eq_(unique((1, 0, 1, 3, 2, 0, 1)), [1, 0, 3, 2])\n    eq_(unique([]), [])\n    eq_(unique([(1, 2), (1,), (1, 2), (0, 3)]), [(1, 2), (1,), (0, 3)])\n\n    # with a key now\n    eq_(unique([(1, 2), (1,), (1, 2), (0, 3)], key=itemgetter(0)), [(1, 2), (0, 3)])\n    eq_(unique([(1, 2), (1, 3), (1, 2), (0, 3)], key=itemgetter(1)), [(1, 2), (1, 3)])\n\n\ndef test_path_():\n    eq_(_path_('a'), 'a')\n    if on_windows:\n        eq_(_path_('a/b'), r'a\\b')\n    else:\n        p = 'a/b/c'\n        assert(_path_(p) is p)  # nothing is done to it whatsoever\n        eq_(_path_(p, 'd'), 'a/b/c/d')\n\n\ndef test_get_timestamp_suffix():\n    # we need to patch temporarily TZ\n    import time\n    try:\n        with patch.dict('os.environ', {'TZ': 'GMT'}):\n            time.tzset()\n            assert_equal(get_timestamp_suffix(0), '-1970-01-01T00:00:00+0000')  # skynet DOB\n            assert_equal(get_timestamp_suffix(0, prefix=\"+\"), '+1970-01-01T00:00:00+0000')\n            # yoh found no way to mock things out and didn't want to provide\n            # explicit call to anything to get current time with the timezone, so disabling\n            # this test for now besides that it should return smth sensible ;)\n            #with patch.object(time, 'localtime', lambda: 1):\n            #    assert_equal(get_timestamp_suffix(), '-1970-01-01T00:00:01+0000')  # skynet is 1 sec old\n            assert(get_timestamp_suffix().startswith('-'))\n    finally:\n        time.tzset()\n",
            "new_file_content": "# emacs: -*- mode: python; py-indent-offset: 4; tab-width: 4; indent-tabs-mode: nil -*-\n# ex: set sts=4 ts=4 sw=4 noet:\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n#\n#   See COPYING file distributed along with the datalad package for the\n#   copyright and license terms.\n#\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n\"\"\"Test testing utilities\n\n\"\"\"\n\nimport os\nimport shutil\nimport sys\nimport logging\nfrom mock import patch\nfrom six import PY3\n\nfrom operator import itemgetter\nfrom os.path import dirname, normpath, pardir, basename\nfrom os.path import isabs, expandvars, expanduser\nfrom collections import OrderedDict\n\nfrom ..dochelpers import exc_str\nfrom ..utils import updated\nfrom os.path import join as opj, abspath, exists\nfrom ..utils import rotree, swallow_outputs, swallow_logs, setup_exceptionhook, md5sum\nfrom ..utils import getpwd, chpwd\nfrom ..utils import auto_repr\nfrom ..utils import find_files\nfrom ..utils import line_profile\nfrom ..utils import not_supported_on_windows\nfrom ..utils import file_basename\nfrom ..utils import expandpath, is_explicit_path\nfrom ..utils import knows_annex\nfrom ..utils import any_re_search\nfrom ..utils import unique\nfrom ..utils import get_func_kwargs_doc\nfrom ..utils import make_tempfile\nfrom ..utils import on_windows\nfrom ..utils import _path_\nfrom ..utils import get_timestamp_suffix\n\nfrom ..support.annexrepo import AnnexRepo\n\nfrom nose.tools import ok_, eq_, assert_false, assert_equal, assert_true\n\nfrom .utils import with_tempfile, assert_in, with_tree\nfrom .utils import SkipTest\nfrom .utils import assert_cwd_unchanged, skip_if_on_windows\nfrom .utils import assure_dict_from_str, assure_list_from_str\nfrom .utils import ok_generator\nfrom .utils import assert_not_in\nfrom .utils import assert_raises\nfrom .utils import ok_startswith\nfrom .utils import skip_if_no_module\n\n\ndef test_get_func_kwargs_doc():\n    def some_func(arg1, kwarg1=None, kwarg2=\"bu\"):\n        return\n    eq_(get_func_kwargs_doc(some_func), ['arg1', 'kwarg1', 'kwarg2'])\n\n\n@with_tempfile(mkdir=True)\ndef test_rotree(d):\n    d2 = opj(d, 'd1', 'd2')  # deep nested directory\n    f = opj(d2, 'f1')\n    os.makedirs(d2)\n    with open(f, 'w') as f_:\n        f_.write(\"LOAD\")\n    with swallow_logs():\n        ar = AnnexRepo(d2)\n    rotree(d)\n    # we shouldn't be able to delete anything UNLESS in \"crippled\" situation:\n    # root, or filesystem is FAT etc\n    # Theoretically annex should declare FS as crippled when ran as root, but\n    # see http://git-annex.branchable.com/bugs/decides_that_FS_is_crippled_under_cowbuilder___40__symlinks_supported_etc__41__/#comment-60c3cbe2710d6865fb9b7d6e247cd7aa\n    # so explicit 'or'\n    if not (ar.is_crippled_fs() or (os.getuid() == 0)):\n        assert_raises(OSError, os.unlink, f)\n        assert_raises(OSError, shutil.rmtree, d)\n        # but file should still be accessible\n        with open(f) as f_:\n            eq_(f_.read(), \"LOAD\")\n    # make it RW\n    rotree(d, False)\n    os.unlink(f)\n    shutil.rmtree(d)\n\n\ndef test_swallow_outputs():\n    with swallow_outputs() as cm:\n        eq_(cm.out, '')\n        sys.stdout.write(\"out normal\")\n        sys.stderr.write(\"out error\")\n        eq_(cm.out, 'out normal')\n        sys.stdout.write(\" and more\")\n        eq_(cm.out, 'out normal and more')  # incremental\n        eq_(cm.err, 'out error')\n        eq_(cm.err, 'out error')  # the same value if multiple times\n\n\n@with_tempfile\ndef test_swallow_logs(logfile):\n    lgr = logging.getLogger('datalad')\n    with swallow_logs(new_level=9) as cm:\n        eq_(cm.out, '')\n        lgr.log(8, \"very heavy debug\")\n        eq_(cm.out, '')  # not even visible at level 9\n        lgr.log(9, \"debug1\")\n        eq_(cm.out, 'debug1\\n')  # not even visible at level 9\n        lgr.info(\"info\")\n        eq_(cm.out, 'debug1\\ninfo\\n')  # not even visible at level 9\n    with swallow_logs(new_level=9, file_=logfile) as cm:\n        eq_(cm.out, '')\n        lgr.info(\"next info\")\n    from datalad.tests.utils import ok_file_has_content\n    ok_file_has_content(logfile, \"next info\", strip=True)\n\n\ndef test_swallow_logs_assert():\n    lgr = logging.getLogger('datalad.tests')\n    with swallow_logs(new_level=9) as cm:\n        # nothing was logged so should fail\n        assert_raises(AssertionError, cm.assert_logged)\n        lgr.info(\"something\")\n        cm.assert_logged(\"something\")\n        cm.assert_logged(level=\"INFO\")\n        cm.assert_logged(\"something\", level=\"INFO\")\n\n        # even with regex = False should match above\n        cm.assert_logged(\"something\", regex=False)\n        cm.assert_logged(level=\"INFO\", regex=False)\n        cm.assert_logged(\"something\", level=\"INFO\", regex=False)\n\n        # different level\n        assert_raises(AssertionError,\n                      cm.assert_logged, \"something\", level=\"DEBUG\")\n        assert_raises(AssertionError, cm.assert_logged, \"else\")\n\n        cm.assert_logged(\"some.hing\", level=\"INFO\")  # regex ;-)\n        # does match\n        assert_raises(AssertionError,\n                      cm.assert_logged, \"ome.hing\", level=\"INFO\")\n        # but we can change it\n        cm.assert_logged(\"some.hing\", level=\"INFO\", match=False)\n    # and we can continue doing checks after we left the cm block\n    cm.assert_logged(\"some.hing\", level=\"INFO\", match=False)\n\n\ndef _check_setup_exceptionhook(interactive):\n    old_exceptionhook = sys.excepthook\n\n    post_mortem_tb = []\n\n    def our_post_mortem(tb):\n        post_mortem_tb.append(tb)\n\n    with patch('sys.excepthook'), \\\n            patch('datalad.utils.is_interactive', lambda: interactive), \\\n            patch('pdb.post_mortem', our_post_mortem):\n        setup_exceptionhook()\n        our_exceptionhook = sys.excepthook\n        ok_(old_exceptionhook != our_exceptionhook)\n        #out = sys.stdout\n        with swallow_logs() as cml, swallow_outputs() as cmo:\n            # we need to call our_exceptionhook explicitly b/c nose\n            # swallows all Exceptions and hook never gets executed\n            try:\n                raise RuntimeError\n            except Exception as e:  # RuntimeError:\n                type_, value_, tb_ = sys.exc_info()\n            our_exceptionhook(type_, value_, tb_)\n            if PY3:\n                # Happens under tox environment but not in manually crafted ones -- not yet sure\n                # what it is about but --dbg does work with python3 so lettting it skip for now\n                raise SkipTest(\"TODO: Not clear why in PY3 calls cleanup if we try to access the beast\")\n            assert_in('Traceback (most recent call last)', cmo.err)\n            assert_in('in _check_setup_exceptionhook', cmo.err)\n            if interactive:\n                assert_equal(post_mortem_tb[0], tb_)\n            else:\n                assert_equal(post_mortem_tb, [])\n                # assert_in('We cannot setup exception hook', cml.out)\n\n    eq_(old_exceptionhook, sys.excepthook)\n\n\ndef test_setup_exceptionhook():\n    for tval in [True, False]:\n        yield _check_setup_exceptionhook, tval\n\n\ndef test_md5sum():\n    # just a smoke (encoding/decoding) test for md5sum\n    _ = md5sum(__file__)\n\n\n@with_tree([('1.tar.gz', (('1 f.txt', '1 f load'),))])\ndef test_md5sum_archive(d):\n    # just a smoke (encoding/decoding) test for md5sum\n    _ = md5sum(opj(d, '1.tar.gz'))\n\ndef test_updated():\n    d = {}\n    eq_(updated(d, {1: 2}), {1: 2})\n    eq_(d, {})\n\n    d = {'a': 'b'}\n    eq_(updated(d, ((0, 1), (2, 3))), {0: 1, 'a': 'b', 2: 3})\n    eq_(d, {'a': 'b'})\n\n    # and that it would maintain the type\n    d = OrderedDict(((99, 0), ('z', 0), ('a', 0)))\n    d_ = updated(d, {0: 1})\n    ok_(isinstance(d_, OrderedDict))\n    eq_(d_, OrderedDict(((99, 0), ('z', 0), ('a', 0), (0, 1))))\n\n\ndef test_get_local_file_url_windows():\n    raise SkipTest(\"TODO\")\n\n@assert_cwd_unchanged\ndef test_getpwd_basic():\n    pwd = getpwd()\n    ok_(isabs(pwd))\n    eq_(os.getcwd(), abspath(pwd))\n\n    # that we do not chdir anywhere if None provided\n    with patch('os.chdir') as oschdir:\n        with chpwd(None):\n            eq_(getpwd(), pwd)\n        assert_false(oschdir.called)\n\n\n@skip_if_on_windows\n@with_tempfile(mkdir=True)\n@assert_cwd_unchanged\ndef test_getpwd_symlink(tdir):\n    sdir = opj(tdir, 's1')\n    pwd_orig = getpwd()\n    os.symlink('.', sdir)\n    s1dir = opj(sdir, 's1')\n    s2dir = opj(sdir, 's2')\n    try:\n        chpwd(sdir)\n        pwd = getpwd()\n        eq_(pwd, sdir)\n        chpwd('s1')\n        eq_(getpwd(), s1dir)\n        chpwd('.')\n        eq_(getpwd(), s1dir)\n        chpwd('..')\n        eq_(getpwd(), sdir)\n    finally:\n        chpwd(pwd_orig)\n\n    # test context handler way of use\n    with chpwd(s1dir):\n        eq_(getpwd(), s1dir)\n    eq_(getpwd(), pwd_orig)\n\n    assert_false(exists(s2dir))\n    with assert_raises(OSError):\n        with chpwd(s2dir):\n            pass\n    with chpwd(s2dir, mkdir=True):\n        ok_(exists(s2dir))\n        eq_(getpwd(), s2dir)\n\n\ndef test_auto_repr():\n\n    class withoutrepr:\n        def __init__(self):\n            self.a = \"does not matter\"\n\n    @auto_repr\n    class buga:\n        def __init__(self):\n            self.a = 1\n            self.b = list(range(100))\n            self.c = withoutrepr()\n            self._c = \"protect me\"\n\n        def some(self):\n            return \"some\"\n\n    assert_equal(repr(buga()), \"buga(a=1, b=<<[0, 1, 2, 3, 4, 5, 6, ...>>, c=<withoutrepr>)\")\n    assert_equal(buga().some(), \"some\")\n\n\ndef test_assure_list_from_str():\n    assert_equal(assure_list_from_str(''), None)\n    assert_equal(assure_list_from_str([]), None)\n    assert_equal(assure_list_from_str('somestring'), ['somestring'])\n    assert_equal(assure_list_from_str('some\\nmultiline\\nstring'), ['some', 'multiline', 'string'])\n    assert_equal(assure_list_from_str(['something']), ['something'])\n    assert_equal(assure_list_from_str(['a', 'listof', 'stuff']), ['a', 'listof', 'stuff'])\n\n\ndef test_assure_dict_from_str():\n    assert_equal(assure_dict_from_str(''), None)\n    assert_equal(assure_dict_from_str({}), None)\n    assert_equal(assure_dict_from_str(\n            '__ac_name={user}\\n__ac_password={password}\\nsubmit=Log in\\ncookies_enabled='), dict(\n             __ac_name='{user}', __ac_password='{password}', cookies_enabled='', submit='Log in'))\n    assert_equal(assure_dict_from_str(\n        dict(__ac_name='{user}', __ac_password='{password}', cookies_enabled='', submit='Log in')), dict(\n             __ac_name='{user}', __ac_password='{password}', cookies_enabled='', submit='Log in'))\n\n\ndef test_any_re_search():\n    assert_true(any_re_search('a', 'a'))\n    assert_true(any_re_search('a', 'bab'))\n    assert_false(any_re_search('^a', 'bab'))\n    assert_true(any_re_search(['b', '.ab'], 'bab'))\n    assert_false(any_re_search(['^b', 'bab'], 'ab'))\n\n\ndef test_find_files():\n    tests_dir = dirname(__file__)\n    proj_dir = normpath(opj(dirname(__file__), pardir))\n\n    ff = find_files('.*', proj_dir)\n    ok_generator(ff)\n    files = list(ff)\n    assert(len(files) > 10)  # we have more than 10 test files here\n    assert_in(opj(tests_dir, 'test_utils.py'), files)\n    # and no directories should be mentioned\n    assert_not_in(tests_dir, files)\n\n    ff2 = find_files('.*', proj_dir, dirs=True)\n    files2 = list(ff2)\n    assert_in(opj(tests_dir, 'test_utils.py'), files2)\n    assert_in(tests_dir, files2)\n\n    # now actually matching the path\n    ff3 = find_files('.*/test_.*\\.py$', proj_dir, dirs=True)\n    files3 = list(ff3)\n    assert_in(opj(tests_dir, 'test_utils.py'), files3)\n    assert_not_in(tests_dir, files3)\n    for f in files3:\n        ok_startswith(basename(f), 'test_')\n\nfrom .utils import with_tree\n@with_tree(tree={\n    '.git': {\n        '1': '2'\n    },\n    'd1': {\n        '.git': 'possibly a link from submodule'\n    },\n    'git': 'just a file'\n})\ndef test_find_files_exclude_vcs(repo):\n    ff = find_files('.*', repo, dirs=True)\n    files = list(ff)\n    assert_equal({basename(f) for f in files}, {'d1', 'git'})\n    assert_not_in(opj(repo, '.git'), files)\n\n    ff = find_files('.*', repo, dirs=True, exclude_vcs=False)\n    files = list(ff)\n    assert_equal({basename(f) for f in files}, {'d1', 'git', '.git', '1'})\n    assert_in(opj(repo, '.git'), files)\n\n\ndef test_line_profile():\n    skip_if_no_module('line_profiler')\n\n    @line_profile\n    def f(j):\n        i = j + 1  # xyz\n        return i\n\n    with swallow_outputs() as cmo:\n        assert_equal(f(3), 4)\n        assert_equal(cmo.err, '')\n        assert_in('i = j + 1  # xyz', cmo.out)\n\n\ndef test_not_supported_on_windows():\n    with patch('datalad.utils.on_windows', True):\n        assert_raises(NotImplementedError, not_supported_on_windows)\n        assert_raises(NotImplementedError, not_supported_on_windows, \"msg\")\n\n    with patch('datalad.utils.on_windows', False):\n        assert_equal(not_supported_on_windows(), None)\n        assert_equal(not_supported_on_windows(\"msg\"), None)\n\n\ndef test_file_basename():\n    eq_(file_basename('1'), '1')\n    eq_(file_basename('d1/1'), '1')\n    eq_(file_basename('/d1/1'), '1')\n    eq_(file_basename('1.'), '1.')\n    eq_(file_basename('1.tar.gz'), '1')\n    eq_(file_basename('1.Tar.gz'), '1')\n    eq_(file_basename('1._bak.gz'), '1')\n    eq_(file_basename('1.tar.gz', return_ext=True), ('1', 'tar.gz'))\n    eq_(file_basename('/tmp/1.tar.gz'), '1')\n    eq_(file_basename('/tmp/1.longish.gz'), '1.longish')\n    eq_(file_basename('1_R1.1.1.tar.gz'), '1_R1.1.1')\n    eq_(file_basename('ds202_R1.1.1.tgz'), 'ds202_R1.1.1')\n\n\ndef test_expandpath():\n    eq_(expandpath(\"some\", False), expanduser('some'))\n    eq_(expandpath(\"some\", False), expandvars('some'))\n    assert_true(isabs(expandpath('some')))\n    # this may have to go because of platform issues\n    eq_(expandpath(\"$HOME\"), expanduser('~'))\n\n\ndef test_is_explicit_path():\n    # by default expanded paths are absolute, hence explicit\n    assert_true(is_explicit_path(expandpath('~')))\n    assert_false(is_explicit_path(\"here\"))\n\n\n@with_tempfile\n@with_tempfile\ndef test_knows_annex(here, there):\n    from datalad.support.gitrepo import GitRepo\n    from datalad.support.annexrepo import AnnexRepo\n    GitRepo(path=here, create=True)\n    assert_false(knows_annex(here))\n    AnnexRepo(path=here, create=True)\n    assert_true(knows_annex(here))\n    GitRepo(path=there, url=here, create=True)\n    assert_true(knows_annex(there))\n\n\ndef test_make_tempfile():\n    # check if mkdir, content conflict caught\n    with assert_raises(ValueError):\n        with make_tempfile(content=\"blah\", mkdir=True):  # pragma: no cover\n            pass\n\n\ndef test_unique():\n    eq_(unique(range(3)), [0, 1, 2])\n    eq_(unique((1, 0, 1, 3, 2, 0, 1)), [1, 0, 3, 2])\n    eq_(unique([]), [])\n    eq_(unique([(1, 2), (1,), (1, 2), (0, 3)]), [(1, 2), (1,), (0, 3)])\n\n    # with a key now\n    eq_(unique([(1, 2), (1,), (1, 2), (0, 3)], key=itemgetter(0)), [(1, 2), (0, 3)])\n    eq_(unique([(1, 2), (1, 3), (1, 2), (0, 3)], key=itemgetter(1)), [(1, 2), (1, 3)])\n\n\ndef test_path_():\n    eq_(_path_('a'), 'a')\n    if on_windows:\n        eq_(_path_('a/b'), r'a\\b')\n    else:\n        p = 'a/b/c'\n        assert(_path_(p) is p)  # nothing is done to it whatsoever\n        eq_(_path_(p, 'd'), 'a/b/c/d')\n\n\ndef test_get_timestamp_suffix():\n    # we need to patch temporarily TZ\n    import time\n    try:\n        with patch.dict('os.environ', {'TZ': 'GMT'}):\n            time.tzset()\n            assert_equal(get_timestamp_suffix(0), '-1970-01-01T00:00:00+0000')  # skynet DOB\n            assert_equal(get_timestamp_suffix(0, prefix=\"+\"), '+1970-01-01T00:00:00+0000')\n            # yoh found no way to mock things out and didn't want to provide\n            # explicit call to anything to get current time with the timezone, so disabling\n            # this test for now besides that it should return smth sensible ;)\n            #with patch.object(time, 'localtime', lambda: 1):\n            #    assert_equal(get_timestamp_suffix(), '-1970-01-01T00:00:01+0000')  # skynet is 1 sec old\n            assert(get_timestamp_suffix().startswith('-'))\n    finally:\n        time.tzset()\n",
            "header": {
                "file": {
                    "path": "datalad/tests/test_utils.py"
                },
                "misc_line": null
            },
            "index_line": {
                "old_commit_hash": "bbbc5486c",
                "new_commit_hash": "aac4f2941",
                "mode": "100644"
            },
            "is_binary_file": false,
            "binary_line": null,
            "minus_file": {
                "path": "a/datalad/tests/test_utils.py"
            },
            "plus_file": {
                "path": "b/datalad/tests/test_utils.py"
            },
            "hunks": [
                {
                    "descriptor": {
                        "old_range": {
                            "start": 129,
                            "length": 6
                        },
                        "new_range": {
                            "start": 129,
                            "length": 13
                        },
                        "section": "def test_swallow_logs_assert():"
                    },
                    "line_group": {
                        "all_lines": [
                            {
                                "content": "        cm.assert_logged(\"something\")",
                                "type": "context"
                            },
                            {
                                "content": "        cm.assert_logged(level=\"INFO\")",
                                "type": "context"
                            },
                            {
                                "content": "        cm.assert_logged(\"something\", level=\"INFO\")",
                                "type": "context"
                            },
                            {
                                "content": "",
                                "type": "added"
                            },
                            {
                                "content": "        # even with regex = False should match above",
                                "type": "added"
                            },
                            {
                                "content": "        cm.assert_logged(\"something\", regex=False)",
                                "type": "added"
                            },
                            {
                                "content": "        cm.assert_logged(level=\"INFO\", regex=False)",
                                "type": "added"
                            },
                            {
                                "content": "        cm.assert_logged(\"something\", level=\"INFO\", regex=False)",
                                "type": "added"
                            },
                            {
                                "content": "",
                                "type": "added"
                            },
                            {
                                "content": "        # different level",
                                "type": "added"
                            },
                            {
                                "content": "        assert_raises(AssertionError,",
                                "type": "context"
                            },
                            {
                                "content": "                      cm.assert_logged, \"something\", level=\"DEBUG\")",
                                "type": "context"
                            },
                            {
                                "content": "        assert_raises(AssertionError, cm.assert_logged, \"else\")",
                                "type": "context"
                            }
                        ]
                    },
                    "modified_entities": [
                        {
                            "file_name": "datalad/tests/test_utils.py",
                            "type": "function",
                            "name": "test_swallow_logs_assert",
                            "content": "def test_swallow_logs_assert():\n    lgr = logging.getLogger('datalad.tests')\n    with swallow_logs(new_level=9) as cm:\n        # nothing was logged so should fail\n        assert_raises(AssertionError, cm.assert_logged)\n        lgr.info(\"something\")\n        cm.assert_logged(\"something\")\n        cm.assert_logged(level=\"INFO\")\n        cm.assert_logged(\"something\", level=\"INFO\")\n\n        # even with regex = False should match above\n        cm.assert_logged(\"something\", regex=False)\n        cm.assert_logged(level=\"INFO\", regex=False)\n        cm.assert_logged(\"something\", level=\"INFO\", regex=False)\n\n        # different level\n        assert_raises(AssertionError,\n                      cm.assert_logged, \"something\", level=\"DEBUG\")\n        assert_raises(AssertionError, cm.assert_logged, \"else\")\n\n        cm.assert_logged(\"some.hing\", level=\"INFO\")  # regex ;-)\n        # does match\n        assert_raises(AssertionError,\n                      cm.assert_logged, \"ome.hing\", level=\"INFO\")\n        # but we can change it\n        cm.assert_logged(\"some.hing\", level=\"INFO\", match=False)\n    # and we can continue doing checks after we left the cm block\n    cm.assert_logged(\"some.hing\", level=\"INFO\", match=False)",
                            "ast_type_str": "FunctionDef",
                            "start_lineno": 123,
                            "end_lineno": 150,
                            "parent": null
                        }
                    ],
                    "added_entities": [],
                    "deleted_entities": []
                }
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        },
        {
            "old_file_content": "# emacs: -*- mode: python; py-indent-offset: 4; tab-width: 4; indent-tabs-mode: nil -*-\n# ex: set sts=4 ts=4 sw=4 noet:\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n#\n#   See COPYING file distributed along with the datalad package for the\n#   copyright and license terms.\n#\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n\nimport collections\nimport re\nimport six.moves.builtins as __builtin__\nimport time\n\nfrom os.path import curdir, basename, exists, realpath, islink, join as opj, isabs, normpath, expandvars, expanduser, abspath\nfrom os.path import isdir\nfrom six.moves.urllib.parse import quote as urlquote, unquote as urlunquote, urlsplit\nfrom six import text_type, binary_type\n\nimport logging\nimport shutil\nimport stat\nimport os\nimport sys\nimport tempfile\nimport platform\nimport gc\nimport glob\n\nfrom functools import wraps\nfrom time import sleep\nfrom inspect import getargspec\n# from datalad.dochelpers import get_docstring_split\nfrom datalad.consts import TIMESTAMP_FMT\n\nlgr = logging.getLogger(\"datalad.utils\")\n\nlgr.log(5, \"Importing datalad.utils\")\n#\n# Some useful variables\n#\n_platform_system = platform.system().lower()\non_windows = _platform_system == 'windows'\non_osx = _platform_system == 'darwin'\non_linux = _platform_system == 'linux'\ntry:\n    linux_distribution = platform.linux_distribution()\n    on_debian_wheezy = on_linux \\\n                       and linux_distribution[0] == 'debian' \\\n                       and linux_distribution[1].startswith('7.')\nexcept:  # pragma: no cover\n    on_debian_wheezy = False\n\n#\n# Little helpers\n#\n\n\ndef get_func_kwargs_doc(func):\n    \"\"\" Provides args for a function\n    \n    Parameters\n    ----------\n    func: str\n      name of the function from which args are being requested\n\n    Returns\n    -------\n    list\n      of the args that a function takes in\n    \"\"\"\n    return getargspec(func)[0]\n\n    # TODO: format error message with descriptions of args\n    # return [repr(dict(get_docstring_split(func)[1]).get(x)) for x in getargspec(func)[0]]\n\n\ndef assure_tuple_or_list(obj):\n    \"\"\"Given an object, wrap into a tuple if not list or tuple\n    \"\"\"\n    if isinstance(obj, list) or isinstance(obj, tuple):\n        return obj\n    return (obj,)\n\n\ndef any_re_search(regexes, value):\n    \"\"\"Return if any of regexes (list or str) searches succesfully for value\"\"\"\n    for regex in assure_tuple_or_list(regexes):\n        if re.search(regex, value):\n            return True\n    return False\n\n\ndef not_supported_on_windows(msg=None):\n    \"\"\"A little helper to be invoked to consistently fail whenever functionality is\n    not supported (yet) on Windows\n    \"\"\"\n    if on_windows:\n        raise NotImplementedError(\"This functionality is not yet implemented for Windows OS\"\n                                  + (\": %s\" % msg if msg else \"\"))\n\n\ndef shortened_repr(value, l=30):\n    try:\n        if hasattr(value, '__repr__') and (value.__repr__ is not object.__repr__):\n            value_repr = repr(value)\n            if not value_repr.startswith('<') and len(value_repr) > l:\n                value_repr = \"<<%s...>>\" % (value_repr[:l-8])\n            elif value_repr.startswith('<') and value_repr.endswith('>') and ' object at 0x':\n                raise ValueError(\"I hate those useless long reprs\")\n        else:\n            raise ValueError(\"gimme class\")\n    except Exception as e:\n        value_repr = \"<%s>\" % value.__class__.__name__.split('.')[-1]\n    return value_repr\n\n\ndef __auto_repr__(obj):\n    attr_names = tuple()\n    if hasattr(obj, '__dict__'):\n        attr_names += tuple(obj.__dict__.keys())\n    if hasattr(obj, '__slots__'):\n        attr_names += tuple(obj.__slots__)\n\n    items = []\n    for attr in sorted(set(attr_names)):\n        if attr.startswith('_'):\n            continue\n        value = getattr(obj, attr)\n        # TODO:  should we add this feature to minimize some talktative reprs\n        # such as of URL?\n        #if value is None:\n        #    continue\n        items.append(\"%s=%s\" % (attr, shortened_repr(value)))\n\n    return \"%s(%s)\" % (obj.__class__.__name__, ', '.join(items))\n\ndef auto_repr(cls):\n    \"\"\"Decorator for a class to assign it an automagic quick and dirty __repr__\n\n    It uses public class attributes to prepare repr of a class\n\n    Original idea: http://stackoverflow.com/a/27799004/1265472\n    \"\"\"\n\n    cls.__repr__ = __auto_repr__\n    return cls\n\ndef is_interactive():\n    \"\"\"Return True if all in/outs are tty\"\"\"\n    # TODO: check on windows if hasattr check would work correctly and add value:\n    #\n    return sys.stdin.isatty() and sys.stdout.isatty() and sys.stderr.isatty()\n\n\nimport hashlib\n\n\ndef md5sum(filename):\n    with open(filename, 'rb') as f:\n        return hashlib.md5(f.read()).hexdigest()\n\n\ndef sorted_files(dout):\n    \"\"\"Return a (sorted) list of files under dout\n    \"\"\"\n    return sorted(sum([[opj(r, f)[len(dout)+1:] for f in files]\n                       for r,d,files in os.walk(dout)\n                       if not '.git' in r], []))\n\nfrom os.path import sep as dirsep\n_VCS_REGEX = '%s\\.(?:git|gitattributes|svn|bzr|hg)(?:%s|$)' % (dirsep, dirsep)\n_DATALAD_REGEX = '%s\\.(?:datalad)(?:%s|$)' % (dirsep, dirsep)\n\n\ndef find_files(regex, topdir=curdir, exclude=None, exclude_vcs=True, exclude_datalad=False, dirs=False):\n    \"\"\"Generator to find files matching regex\n\n    Parameters\n    ----------\n    regex: basestring\n    exclude: basestring, optional\n      Matches to exclude\n    exclude_vcs:\n      If True, excludes commonly known VCS subdirectories.  If string, used\n      as regex to exclude those files (regex: `%r`)\n    exclude_datalad:\n      If True, excludes files known to be datalad meta-data files (e.g. under\n      .datalad/ subdirectory) (regex: `%r`)\n    topdir: basestring, optional\n      Directory where to search\n    dirs: bool, optional\n      Either to match directories as well as files\n    \"\"\"\n\n    for dirpath, dirnames, filenames in os.walk(topdir):\n        names = (dirnames + filenames) if dirs else filenames\n        # TODO: might want to uniformize on windows to use '/'\n        paths = (opj(dirpath, name) for name in names)\n        for path in filter(re.compile(regex).search, paths):\n            path = path.rstrip(dirsep)\n            if exclude and re.search(exclude, path):\n                continue\n            if exclude_vcs and re.search(_VCS_REGEX, path):\n                continue\n            if exclude_datalad and re.search(_DATALAD_REGEX, path):\n                continue\n            yield path\nfind_files.__doc__ %= (_VCS_REGEX, _DATALAD_REGEX)\n\n\ndef expandpath(path, force_absolute=True):\n    \"\"\"Expand all variables and user handles in a path.\n\n    By default return an absolute path\n    \"\"\"\n    path = expandvars(expanduser(path))\n    if force_absolute:\n        path = abspath(path)\n    return path\n\n\ndef is_explicit_path(path):\n    \"\"\"Return whether a path explicitly points to a location\n\n    Any absolute path, or relative path starting with either '../' or\n    './' is assumed to indicate a location on the filesystem. Any other\n    path format is not considered explicit.\"\"\"\n    path = expandpath(path, force_absolute=False)\n    return isabs(path) \\\n        or path.startswith(os.curdir + os.sep) \\\n        or path.startswith(os.pardir + os.sep)\n\ndef rotree(path, ro=True, chmod_files=True):\n    \"\"\"To make tree read-only or writable\n\n    Parameters\n    ----------\n    path : string\n      Path to the tree/directory to chmod\n    ro : bool, optional\n      Either to make it R/O (default) or RW\n    chmod_files : bool, optional\n      Either to operate also on files (not just directories)\n    \"\"\"\n    if ro:\n        chmod = lambda f: os.chmod(f, os.stat(f).st_mode & ~stat.S_IWRITE)\n    else:\n        chmod = lambda f: os.chmod(f, os.stat(f).st_mode | stat.S_IWRITE | stat.S_IREAD)\n\n    for root, dirs, files in os.walk(path, followlinks=False):\n        if chmod_files:\n            for f in files:\n                fullf = opj(root, f)\n                # might be the \"broken\" symlink which would fail to stat etc\n                if exists(fullf):\n                    chmod(fullf)\n        chmod(root)\n\n\ndef rmtree(path, chmod_files='auto', *args, **kwargs):\n    \"\"\"To remove git-annex .git it is needed to make all files and directories writable again first\n\n    Parameters\n    ----------\n    chmod_files : string or bool, optional\n       Either to make files writable also before removal.  Usually it is just\n       a matter of directories to have write permissions.\n       If 'auto' it would chmod files on windows by default\n    `*args` :\n    `**kwargs` :\n       Passed into shutil.rmtree call\n    \"\"\"\n    # Give W permissions back only to directories, no need to bother with files\n    if chmod_files == 'auto':\n        chmod_files = on_windows\n\n    if not os.path.islink(path):\n        rotree(path, ro=False, chmod_files=chmod_files)\n        shutil.rmtree(path, *args, **kwargs)\n    else:\n        # just remove the symlink\n        os.unlink(path)\n\n\ndef rmtemp(f, *args, **kwargs):\n    \"\"\"Wrapper to centralize removing of temp files so we could keep them around\n\n    It will not remove the temporary file/directory if DATALAD_TESTS_KEEPTEMP\n    environment variable is defined\n    \"\"\"\n    if not os.environ.get('DATALAD_TESTS_KEEPTEMP'):\n        if not os.path.lexists(f):\n            lgr.debug(\"Path %s does not exist, so can't be removed\" % f)\n            return\n        lgr.log(5, \"Removing temp file: %s\" % f)\n        # Can also be a directory\n        if os.path.isdir(f):\n            rmtree(f, *args, **kwargs)\n        else:\n            for i in range(10):\n                try:\n                    os.unlink(f)\n                except OSError as e:\n                    if i < 9:\n                        sleep(0.1)\n                        continue\n                    else:\n                        raise\n                break\n    else:\n        lgr.info(\"Keeping temp file: %s\" % f)\n\n\ndef file_basename(name, return_ext=False):\n    \"\"\"\n    Strips up to 2 extensions of length up to 4 characters and starting with alpha\n    not a digit, so we could get rid of .tar.gz etc\n    \"\"\"\n    bname = basename(name)\n    fbname = re.sub('(\\.[a-zA-Z_]\\S{1,4}){0,2}$', '', bname)\n    if return_ext:\n        return fbname, bname[len(fbname)+1:]\n    else:\n        return fbname\n\n\ndef escape_filename(filename):\n    \"\"\"Surround filename in \"\" and escape \" in the filename\n    \"\"\"\n    filename = filename.replace('\"', r'\\\"').replace('`', r'\\`')\n    filename = '\"%s\"' % filename\n    return filename\n\n\ndef encode_filename(filename):\n    \"\"\"Encode unicode filename\n    \"\"\"\n    if isinstance(filename, text_type):\n        return filename.encode(sys.getfilesystemencoding())\n    else:\n        return filename\n\nif on_windows:\n    def lmtime(filepath, mtime):\n        \"\"\"Set mtime for files.  On Windows a merely adapter to os.utime\n        \"\"\"\n        os.utime(filepath, (time.time(), mtime))\nelse:\n    def lmtime(filepath, mtime):\n        \"\"\"Set mtime for files, while not de-referencing symlinks.\n\n        To overcome absence of os.lutime\n\n        Works only on linux and OSX ATM\n        \"\"\"\n        from .cmd import Runner\n        # convert mtime to format touch understands [[CC]YY]MMDDhhmm[.SS]\n        smtime = time.strftime(\"%Y%m%d%H%M.%S\", time.localtime(mtime))\n        lgr.log(3, \"Setting mtime for %s to %s == %s\", filepath, mtime, smtime)\n        Runner().run(['touch', '-h', '-t', '%s' % smtime, filepath])\n        rfilepath = realpath(filepath)\n        if islink(filepath) and exists(rfilepath):\n            # trust noone - adjust also of the target file\n            # since it seemed like downloading under OSX (was it using curl?)\n            # didn't bother with timestamps\n            lgr.log(3, \"File is a symlink to %s Setting mtime for it to %s\",\n                    rfilepath, mtime)\n            os.utime(rfilepath, (time.time(), mtime))\n        # doesn't work on OSX\n        # Runner().run(['touch', '-h', '-d', '@%s' % mtime, filepath])\n\n\ndef assure_list(s):\n    \"\"\"Given not a list, would place it into a list. If None - empty list is returned\n\n    Parameters\n    ----------\n    s: list or anything\n    \"\"\"\n\n    if isinstance(s, list):\n        return s\n    elif isinstance(s, tuple):\n        return list(s)\n    elif s is None:\n        return []\n    else:\n        return [s]\n\n\ndef assure_list_from_str(s, sep='\\n'):\n    \"\"\"Given a multiline string convert it to a list of return None if empty\n\n    Parameters\n    ----------\n    s: str or list\n    \"\"\"\n\n    if not s:\n        return None\n\n    if isinstance(s, list):\n        return s\n    return s.split(sep)\n\n\ndef assure_dict_from_str(s, **kwargs):\n    \"\"\"Given a multiline string with key=value items convert it to a dictionary\n\n    Parameters\n    ----------\n    s: str or dict\n\n    Returns None if input s is empty\n    \"\"\"\n\n    if not s:\n        return None\n\n    if isinstance(s, dict):\n        return s\n\n    out = {}\n    for value_str in assure_list_from_str(s, **kwargs):\n        if '=' not in value_str:\n            raise ValueError(\"{} is not in key=value format\".format(repr(value_str)))\n        k, v = value_str.split('=', 1)\n        if k in out:\n            err  = \"key {} was already defined in {}, but new value {} was provided\".format(k, out, v)\n            raise ValueError(err)\n        out[k] = v\n    return out\n\n\ndef unique(seq, key=None):\n    \"\"\"Given a sequence return a list only with unique elements while maintaining order\n\n    This is the fastest solution.  See\n    https://www.peterbe.com/plog/uniqifiers-benchmark\n    and\n    http://stackoverflow.com/a/480227/1265472\n    for more information.\n    Enhancement -- added ability to compare for uniqueness using a key function\n\n    Parameters\n    ----------\n    seq:\n      Sequence to analyze\n    key: callable, optional\n      Function to call on each element so we could decide not on a full\n      element, but on its member etc\n    \"\"\"\n    seen = set()\n    seen_add = seen.add\n    if not key:\n        return [x for x in seq if not (x in seen or seen_add(x))]\n    else:\n        # OPT: could be optimized, since key is called twice, but for our cases\n        # should be just as fine\n        return [x for x in seq if not (key(x) in seen or seen_add(key(x)))]\n\n#\n# Decorators\n#\n\n# Borrowed from pandas\n# Copyright: 2011-2014, Lambda Foundry, Inc. and PyData Development Team\n# Licese: BSD-3\ndef optional_args(decorator):\n    \"\"\"allows a decorator to take optional positional and keyword arguments.\n        Assumes that taking a single, callable, positional argument means that\n        it is decorating a function, i.e. something like this::\n\n            @my_decorator\n            def function(): pass\n\n        Calls decorator with decorator(f, `*args`, `**kwargs`)\"\"\"\n\n    @wraps(decorator)\n    def wrapper(*args, **kwargs):\n        def dec(f):\n            return decorator(f, *args, **kwargs)\n\n        is_decorating = not kwargs and len(args) == 1 and isinstance(args[0], collections.Callable)\n        if is_decorating:\n            f = args[0]\n            args = []\n            return dec(f)\n        else:\n            return dec\n\n    return wrapper\n\n\n# TODO: just provide decorators for tempfile.mk* functions. This is ugly!\ndef get_tempfile_kwargs(tkwargs={}, prefix=\"\", wrapped=None):\n    \"\"\"Updates kwargs to be passed to tempfile. calls depending on env vars\n    \"\"\"\n    # operate on a copy of tkwargs to avoid any side-effects\n    tkwargs_ = tkwargs.copy()\n\n    # TODO: don't remember why I had this one originally\n    # if len(targs)<2 and \\\n    if 'prefix' not in tkwargs_:\n        tkwargs_['prefix'] = '_'.join(\n            ['datalad_temp'] +\n            ([prefix] if prefix else []) +\n            ([''] if (on_windows or not wrapped)\n                  else [wrapped.__name__]))\n\n    directory = os.environ.get('DATALAD_TESTS_TEMPDIR')\n    if directory and 'dir' not in tkwargs_:\n        tkwargs_['dir'] = directory\n\n    return tkwargs_\n\n@optional_args\ndef line_profile(func):\n    \"\"\"Q&D helper to line profile the function and spit out stats\n    \"\"\"\n    import line_profiler\n    prof = line_profiler.LineProfiler()\n\n    @wraps(func)\n    def newfunc(*args, **kwargs):\n        try:\n            pfunc = prof(func)\n            return pfunc(*args, **kwargs)\n        finally:\n            prof.print_stats()\n    return newfunc\n\n#\n# Context Managers\n#\n\nfrom contextlib import contextmanager\n\n@contextmanager\ndef swallow_outputs():\n    \"\"\"Context manager to help consuming both stdout and stderr, and print()\n\n    stdout is available as cm.out and stderr as cm.err whenever cm is the\n    yielded context manager.\n    Internally uses temporary files to guarantee absent side-effects of swallowing\n    into StringIO which lacks .fileno.\n\n    print mocking is necessary for some uses where sys.stdout was already bound\n    to original sys.stdout, thus mocking it later had no effect. Overriding\n    print function had desired effect\n    \"\"\"\n\n    debugout = sys.stdout\n    class StringIOAdapter(object):\n        \"\"\"Little adapter to help getting out/err values\n        \"\"\"\n        def __init__(self):\n            kw = get_tempfile_kwargs({}, prefix=\"outputs\")\n\n            self._out = open(tempfile.mktemp(**kw), 'w')\n            self._err = open(tempfile.mktemp(**kw), 'w')\n\n        def _read(self, h):\n            with open(h.name) as f:\n                return f.read()\n\n        @property\n        def out(self):\n            self._out.flush()\n            return self._read(self._out)\n\n        @property\n        def err(self):\n            self._err.flush()\n            return self._read(self._err)\n\n        @property\n        def handles(self):\n            return self._out, self._err\n\n        def cleanup(self):\n            self._out.close()\n            self._err.close()\n            out_name = self._out.name\n            err_name = self._err.name\n            del self._out\n            del self._err\n            gc.collect()\n            rmtemp(out_name)\n            rmtemp(err_name)\n\n\n\n    def fake_print(*args, **kwargs):\n        sep = kwargs.pop('sep', ' ')\n        end = kwargs.pop('end', '\\n')\n        file = kwargs.pop('file', sys.stdout)\n\n        if file in (oldout, olderr, sys.stdout, sys.stderr):\n            # we mock\n            sys.stdout.write(sep.join(args) + end)\n        else:\n            # must be some other file one -- leave it alone\n            oldprint(*args, sep=sep, end=end, file=file)\n\n    from .ui import ui\n    # preserve -- they could have been mocked already\n    oldprint = getattr(__builtin__, 'print')\n    oldout, olderr = sys.stdout, sys.stderr\n    olduiout = ui.out\n    adapter = StringIOAdapter()\n\n    try:\n        sys.stdout, sys.stderr = adapter.handles\n        ui.out = adapter.handles[0]\n        setattr(__builtin__, 'print', fake_print)\n\n        yield adapter\n    finally:\n        sys.stdout, sys.stderr, ui.out = oldout, olderr, olduiout\n        setattr(__builtin__, 'print',  oldprint)\n        adapter.cleanup()\n\n\n@contextmanager\ndef swallow_logs(new_level=None, file_=None):\n    \"\"\"Context manager to consume all logs.\n\n    \"\"\"\n    lgr = logging.getLogger(\"datalad\")\n\n    # Keep old settings\n    old_level = lgr.level\n    old_handlers = lgr.handlers\n\n    # Let's log everything into a string\n    # TODO: generalize with the one for swallow_outputs\n    class StringIOAdapter(object):\n        \"\"\"Little adapter to help getting out values\n\n        And to stay consistent with how swallow_outputs behaves\n        \"\"\"\n        def __init__(self):\n            if file_ is None:\n                kw = get_tempfile_kwargs({}, prefix=\"logs\")\n                out_file = tempfile.mktemp(**kw)\n            else:\n                out_file = file_\n            # PY3 requires clearly one or another.  race condition possible\n            self._out = open(out_file, 'a')\n            self._final_out = None\n\n        def _read(self, h):\n            with open(h.name) as f:\n                return f.read()\n\n        @property\n        def out(self):\n            if self._final_out is not None:\n                # we closed and cleaned up already\n                return self._final_out\n            else:\n                self._out.flush()\n                return self._read(self._out)\n\n        @property\n        def lines(self):\n            return self.out.split('\\n')\n\n        @property\n        def handle(self):\n            return self._out\n\n        def cleanup(self):\n            # store for access while object exists\n            self._final_out = self.out\n            self._out.close()\n            out_name = self._out.name\n            del self._out\n            gc.collect()\n            if not file_:\n                rmtemp(out_name)\n\n        def assert_logged(self, msg=None, level=None, **kwargs):\n            \"\"\"Provide assertion on either a msg was logged at a given level\n\n            If neither `msg` nor `level` provided, checks if anything was logged\n            at all.\n\n            Parameters\n            ----------\n            msg: str, optional\n              Message (as a regular expression) to be searched.\n              If no msg provided, checks if anything was logged at a given level.\n            level: str, optional\n              String representing the level to be logged\n            **kwargs: str, optional\n              Passed to `assert_re_in`\n            \"\"\"\n            from datalad.tests.utils import assert_re_in\n            regex = '\\[%s\\] ' % level if level else \"\\[\\S+\\] \"\n            if msg:\n                regex += msg\n\n            if regex:\n                assert_re_in(regex, self.out, **kwargs)\n            else:\n                assert not kwargs, \"no kwargs to be passed anywhere\"\n                assert self.out, \"Nothing was logged!?\"\n\n\n    adapter = StringIOAdapter()\n    # TODO: it does store messages but without any formatting, i.e. even without\n    # date/time prefix etc.  IMHO it should preserve formatting in case if file_ is\n    # set\n    swallow_handler = logging.StreamHandler(adapter.handle)\n    # we want to log levelname so we could test against it\n    swallow_handler.setFormatter(\n        logging.Formatter('[%(levelname)s] %(message)s'))\n    lgr.handlers = [swallow_handler]\n    if old_level < logging.DEBUG:  # so if HEAVYDEBUG etc -- show them!\n        lgr.handlers += old_handlers\n\n    if isinstance(new_level, str):\n        new_level = getattr(logging, new_level)\n\n    if new_level is not None:\n        lgr.setLevel(new_level)\n\n    try:\n        yield adapter\n        # TODO: if file_ and there was an exception -- most probably worth logging it?\n        # although ideally it should be the next log outside added to that file_ ... oh well\n    finally:\n        lgr.handlers, lgr.level = old_handlers, old_level\n        adapter.cleanup()\n\n\n#\n# Additional handlers\n#\n_sys_excepthook = sys.excepthook  # Just in case we ever need original one\ndef setup_exceptionhook(ipython=False):\n    \"\"\"Overloads default sys.excepthook with our exceptionhook handler.\n\n       If interactive, our exceptionhook handler will invoke\n       pdb.post_mortem; if not interactive, then invokes default handler.\n    \"\"\"\n\n    def _datalad_pdb_excepthook(type, value, tb):\n        import traceback\n        traceback.print_exception(type, value, tb)\n        print()\n        if is_interactive():\n            import pdb\n            pdb.post_mortem(tb)\n\n    if ipython:\n        from IPython.core import ultratb\n        sys.excepthook = ultratb.FormattedTB(mode='Verbose',\n                                             # color_scheme='Linux',\n                                             call_pdb=is_interactive())\n    else:\n        sys.excepthook = _datalad_pdb_excepthook\n\n\ndef assure_dir(*args):\n    \"\"\"Make sure directory exists.\n\n    Joins the list of arguments to an os-specific path to the desired\n    directory and creates it, if it not exists yet.\n    \"\"\"\n    dirname = opj(*args)\n    if not exists(dirname):\n        os.makedirs(dirname)\n    return dirname\n\ndef updated(d, update):\n    \"\"\"Return a copy of the input with the 'update'\n\n    Primarily for updating dictionaries\n    \"\"\"\n    d = d.copy()\n    d.update(update)\n    return d\n\ndef getpwd():\n    \"\"\"Try to return a CWD without dereferencing possible symlinks\n\n    If no PWD found in the env, output of getcwd() is returned\n    \"\"\"\n    try:\n        return os.environ['PWD']\n    except KeyError:\n        return os.getcwd()\n\nclass chpwd(object):\n    \"\"\"Wrapper around os.chdir which also adjusts environ['PWD']\n\n    The reason is that otherwise PWD is simply inherited from the shell\n    and we have no ability to assess directory path without dereferencing\n    symlinks.\n\n    If used as a context manager it allows to temporarily change directory\n    to the given path\n    \"\"\"\n    def __init__(self, path, mkdir=False, logsuffix=''):\n\n        if path:\n            pwd = getpwd()\n            self._prev_pwd = pwd\n        else:\n            self._prev_pwd = None\n            return\n\n        if not isabs(path):\n            path = normpath(opj(pwd, path))\n        if not os.path.exists(path) and mkdir:\n            self._mkdir = True\n            os.mkdir(path)\n        else:\n            self._mkdir = False\n        lgr.debug(\"chdir %r -> %r %s\", self._prev_pwd, path, logsuffix)\n        os.chdir(path)  # for grep people -- ok, to chdir here!\n        os.environ['PWD'] = path\n\n    def __enter__(self):\n        # nothing more to do really, chdir was in the constructor\n        pass\n\n    def __exit__(self, exc_type, exc_val, exc_tb):\n        if self._prev_pwd:\n            # Need to use self.__class__ so this instance, if the entire\n            # thing mocked during the test, still would use correct chpwd\n            self.__class__(self._prev_pwd, logsuffix=\"(coming back)\")\n\n\ndef knows_annex(path):\n    \"\"\"Returns whether at a given path there is information about an annex\n\n    It is just a thin wrapper around GitRepo.is_with_annex() classmethod\n    which also checks for `path` to exist first.\n\n    This includes actually present annexes, but also uninitialized ones, or\n    even the presence of a remote annex branch.\n    \"\"\"\n    from os.path import exists\n    if not exists(path):\n        lgr.debug(\"No annex: test path {0} doesn't exist\".format(path))\n        return False\n    from datalad.support.gitrepo import GitRepo\n    return GitRepo(path, init=False, create=False).is_with_annex()\n\n\n@contextmanager\ndef make_tempfile(content=None, wrapped=None, **tkwargs):\n    \"\"\"Helper class to provide a temporary file name and remove it at the end (context manager)\n\n    Parameters\n    ----------\n    mkdir : bool, optional (default: False)\n        If True, temporary directory created using tempfile.mkdtemp()\n    content : str or bytes, optional\n        Content to be stored in the file created\n    wrapped : function, optional\n        If set, function name used to prefix temporary file name\n    `**tkwargs`:\n        All other arguments are passed into the call to tempfile.mk{,d}temp(),\n        and resultant temporary filename is passed as the first argument into\n        the function t.  If no 'prefix' argument is provided, it will be\n        constructed using module and function names ('.' replaced with\n        '_').\n\n    To change the used directory without providing keyword argument 'dir' set\n    DATALAD_TESTS_TEMPDIR.\n\n    Examples\n    --------\n        >>> from os.path import exists\n        >>> from datalad.utils import make_tempfile\n        >>> with make_tempfile() as fname:\n        ...    k = open(fname, 'w').write('silly test')\n        >>> assert not exists(fname)  # was removed\n\n        >>> with make_tempfile(content=\"blah\") as fname:\n        ...    assert open(fname).read() == \"blah\"\n    \"\"\"\n\n    if tkwargs.get('mkdir', None) and content is not None:\n        raise ValueError(\"mkdir=True while providing content makes no sense\")\n\n    tkwargs_ = get_tempfile_kwargs(tkwargs, wrapped=wrapped)\n\n    # if DATALAD_TESTS_TEMPDIR is set, use that as directory,\n    # let mktemp handle it otherwise. However, an explicitly provided\n    # dir=... will override this.\n    mkdir = tkwargs_.pop('mkdir', False)\n\n    filename = {False: tempfile.mktemp,\n                True: tempfile.mkdtemp}[mkdir](**tkwargs_)\n    filename = realpath(filename)\n\n    if content:\n        with open(filename, 'w' + ('b' if isinstance(content, binary_type) else '')) as f:\n            f.write(content)\n\n    if __debug__:\n        # TODO mkdir\n        lgr.debug('Created temporary thing named %s\"' % filename)\n    try:\n        yield filename\n    finally:\n        # glob here for all files with the same name (-suffix)\n        # would be useful whenever we requested .img filename,\n        # and function creates .hdr as well\n        lsuffix = len(tkwargs_.get('suffix', ''))\n        filename_ = lsuffix and filename[:-lsuffix] or filename\n        filenames = glob.glob(filename_ + '*')\n        if len(filename_) < 3 or len(filenames) > 5:\n            # For paranoid yoh who stepped into this already ones ;-)\n            lgr.warning(\"It is unlikely that it was intended to remove all\"\n                        \" files matching %r. Skipping\" % filename_)\n            return\n        for f in filenames:\n            try:\n                rmtemp(f)\n            except OSError:\n                pass\n\n\ndef _path_(*p):\n    \"\"\"Given a path in POSIX\" notation, regenerate one in native to the env one\"\"\"\n    if on_windows:\n        return opj(*map(lambda x: x.split('/'), p))\n    else:\n        # Assume that all others as POSIX compliant so nothing to be done\n        return opj(*p)\n\n\ndef get_timestamp_suffix(time_=None, prefix='-'):\n    \"\"\"Return a time stamp (full date and time up to second)\n\n    primarily to be used for generation of log files names\n    \"\"\"\n    args = []\n    if time_ is not None:\n        if isinstance(time_, int):\n            time_ = time.gmtime(time_)\n        args.append(time_)\n    return time.strftime(prefix + TIMESTAMP_FMT, *args)\n\n\ndef get_logfilename(dspath, cmd='datalad'):\n    \"\"\"Return a filename to use for logging under a dataset/repository\n\n    directory would be created if doesn't exist, but dspath must exist\n    and be a directory\n    \"\"\"\n    assert(exists(dspath))\n    assert(isdir(dspath))\n    ds_logdir = assure_dir(dspath, '.git', 'datalad', 'logs')  # TODO: use WEB_META_LOG whenever #789 merged\n    return opj(ds_logdir, 'crawl-%s.log' % get_timestamp_suffix())\n\n\nlgr.log(5, \"Done importing datalad.utils\")\n",
            "new_file_content": "# emacs: -*- mode: python; py-indent-offset: 4; tab-width: 4; indent-tabs-mode: nil -*-\n# ex: set sts=4 ts=4 sw=4 noet:\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n#\n#   See COPYING file distributed along with the datalad package for the\n#   copyright and license terms.\n#\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n\nimport collections\nimport re\nimport six.moves.builtins as __builtin__\nimport time\n\nfrom os.path import curdir, basename, exists, realpath, islink, join as opj, isabs, normpath, expandvars, expanduser, abspath\nfrom os.path import isdir\nfrom six.moves.urllib.parse import quote as urlquote, unquote as urlunquote, urlsplit\nfrom six import text_type, binary_type\n\nimport logging\nimport shutil\nimport stat\nimport os\nimport sys\nimport tempfile\nimport platform\nimport gc\nimport glob\n\nfrom functools import wraps\nfrom time import sleep\nfrom inspect import getargspec\n# from datalad.dochelpers import get_docstring_split\nfrom datalad.consts import TIMESTAMP_FMT\n\nlgr = logging.getLogger(\"datalad.utils\")\n\nlgr.log(5, \"Importing datalad.utils\")\n#\n# Some useful variables\n#\n_platform_system = platform.system().lower()\non_windows = _platform_system == 'windows'\non_osx = _platform_system == 'darwin'\non_linux = _platform_system == 'linux'\ntry:\n    linux_distribution = platform.linux_distribution()\n    on_debian_wheezy = on_linux \\\n                       and linux_distribution[0] == 'debian' \\\n                       and linux_distribution[1].startswith('7.')\nexcept:  # pragma: no cover\n    on_debian_wheezy = False\n\n#\n# Little helpers\n#\n\n\ndef get_func_kwargs_doc(func):\n    \"\"\" Provides args for a function\n    \n    Parameters\n    ----------\n    func: str\n      name of the function from which args are being requested\n\n    Returns\n    -------\n    list\n      of the args that a function takes in\n    \"\"\"\n    return getargspec(func)[0]\n\n    # TODO: format error message with descriptions of args\n    # return [repr(dict(get_docstring_split(func)[1]).get(x)) for x in getargspec(func)[0]]\n\n\ndef assure_tuple_or_list(obj):\n    \"\"\"Given an object, wrap into a tuple if not list or tuple\n    \"\"\"\n    if isinstance(obj, list) or isinstance(obj, tuple):\n        return obj\n    return (obj,)\n\n\ndef any_re_search(regexes, value):\n    \"\"\"Return if any of regexes (list or str) searches succesfully for value\"\"\"\n    for regex in assure_tuple_or_list(regexes):\n        if re.search(regex, value):\n            return True\n    return False\n\n\ndef not_supported_on_windows(msg=None):\n    \"\"\"A little helper to be invoked to consistently fail whenever functionality is\n    not supported (yet) on Windows\n    \"\"\"\n    if on_windows:\n        raise NotImplementedError(\"This functionality is not yet implemented for Windows OS\"\n                                  + (\": %s\" % msg if msg else \"\"))\n\n\ndef shortened_repr(value, l=30):\n    try:\n        if hasattr(value, '__repr__') and (value.__repr__ is not object.__repr__):\n            value_repr = repr(value)\n            if not value_repr.startswith('<') and len(value_repr) > l:\n                value_repr = \"<<%s...>>\" % (value_repr[:l-8])\n            elif value_repr.startswith('<') and value_repr.endswith('>') and ' object at 0x':\n                raise ValueError(\"I hate those useless long reprs\")\n        else:\n            raise ValueError(\"gimme class\")\n    except Exception as e:\n        value_repr = \"<%s>\" % value.__class__.__name__.split('.')[-1]\n    return value_repr\n\n\ndef __auto_repr__(obj):\n    attr_names = tuple()\n    if hasattr(obj, '__dict__'):\n        attr_names += tuple(obj.__dict__.keys())\n    if hasattr(obj, '__slots__'):\n        attr_names += tuple(obj.__slots__)\n\n    items = []\n    for attr in sorted(set(attr_names)):\n        if attr.startswith('_'):\n            continue\n        value = getattr(obj, attr)\n        # TODO:  should we add this feature to minimize some talktative reprs\n        # such as of URL?\n        #if value is None:\n        #    continue\n        items.append(\"%s=%s\" % (attr, shortened_repr(value)))\n\n    return \"%s(%s)\" % (obj.__class__.__name__, ', '.join(items))\n\ndef auto_repr(cls):\n    \"\"\"Decorator for a class to assign it an automagic quick and dirty __repr__\n\n    It uses public class attributes to prepare repr of a class\n\n    Original idea: http://stackoverflow.com/a/27799004/1265472\n    \"\"\"\n\n    cls.__repr__ = __auto_repr__\n    return cls\n\ndef is_interactive():\n    \"\"\"Return True if all in/outs are tty\"\"\"\n    # TODO: check on windows if hasattr check would work correctly and add value:\n    #\n    return sys.stdin.isatty() and sys.stdout.isatty() and sys.stderr.isatty()\n\n\nimport hashlib\n\n\ndef md5sum(filename):\n    with open(filename, 'rb') as f:\n        return hashlib.md5(f.read()).hexdigest()\n\n\ndef sorted_files(dout):\n    \"\"\"Return a (sorted) list of files under dout\n    \"\"\"\n    return sorted(sum([[opj(r, f)[len(dout)+1:] for f in files]\n                       for r,d,files in os.walk(dout)\n                       if not '.git' in r], []))\n\nfrom os.path import sep as dirsep\n_VCS_REGEX = '%s\\.(?:git|gitattributes|svn|bzr|hg)(?:%s|$)' % (dirsep, dirsep)\n_DATALAD_REGEX = '%s\\.(?:datalad)(?:%s|$)' % (dirsep, dirsep)\n\n\ndef find_files(regex, topdir=curdir, exclude=None, exclude_vcs=True, exclude_datalad=False, dirs=False):\n    \"\"\"Generator to find files matching regex\n\n    Parameters\n    ----------\n    regex: basestring\n    exclude: basestring, optional\n      Matches to exclude\n    exclude_vcs:\n      If True, excludes commonly known VCS subdirectories.  If string, used\n      as regex to exclude those files (regex: `%r`)\n    exclude_datalad:\n      If True, excludes files known to be datalad meta-data files (e.g. under\n      .datalad/ subdirectory) (regex: `%r`)\n    topdir: basestring, optional\n      Directory where to search\n    dirs: bool, optional\n      Either to match directories as well as files\n    \"\"\"\n\n    for dirpath, dirnames, filenames in os.walk(topdir):\n        names = (dirnames + filenames) if dirs else filenames\n        # TODO: might want to uniformize on windows to use '/'\n        paths = (opj(dirpath, name) for name in names)\n        for path in filter(re.compile(regex).search, paths):\n            path = path.rstrip(dirsep)\n            if exclude and re.search(exclude, path):\n                continue\n            if exclude_vcs and re.search(_VCS_REGEX, path):\n                continue\n            if exclude_datalad and re.search(_DATALAD_REGEX, path):\n                continue\n            yield path\nfind_files.__doc__ %= (_VCS_REGEX, _DATALAD_REGEX)\n\n\ndef expandpath(path, force_absolute=True):\n    \"\"\"Expand all variables and user handles in a path.\n\n    By default return an absolute path\n    \"\"\"\n    path = expandvars(expanduser(path))\n    if force_absolute:\n        path = abspath(path)\n    return path\n\n\ndef is_explicit_path(path):\n    \"\"\"Return whether a path explicitly points to a location\n\n    Any absolute path, or relative path starting with either '../' or\n    './' is assumed to indicate a location on the filesystem. Any other\n    path format is not considered explicit.\"\"\"\n    path = expandpath(path, force_absolute=False)\n    return isabs(path) \\\n        or path.startswith(os.curdir + os.sep) \\\n        or path.startswith(os.pardir + os.sep)\n\ndef rotree(path, ro=True, chmod_files=True):\n    \"\"\"To make tree read-only or writable\n\n    Parameters\n    ----------\n    path : string\n      Path to the tree/directory to chmod\n    ro : bool, optional\n      Either to make it R/O (default) or RW\n    chmod_files : bool, optional\n      Either to operate also on files (not just directories)\n    \"\"\"\n    if ro:\n        chmod = lambda f: os.chmod(f, os.stat(f).st_mode & ~stat.S_IWRITE)\n    else:\n        chmod = lambda f: os.chmod(f, os.stat(f).st_mode | stat.S_IWRITE | stat.S_IREAD)\n\n    for root, dirs, files in os.walk(path, followlinks=False):\n        if chmod_files:\n            for f in files:\n                fullf = opj(root, f)\n                # might be the \"broken\" symlink which would fail to stat etc\n                if exists(fullf):\n                    chmod(fullf)\n        chmod(root)\n\n\ndef rmtree(path, chmod_files='auto', *args, **kwargs):\n    \"\"\"To remove git-annex .git it is needed to make all files and directories writable again first\n\n    Parameters\n    ----------\n    chmod_files : string or bool, optional\n       Either to make files writable also before removal.  Usually it is just\n       a matter of directories to have write permissions.\n       If 'auto' it would chmod files on windows by default\n    `*args` :\n    `**kwargs` :\n       Passed into shutil.rmtree call\n    \"\"\"\n    # Give W permissions back only to directories, no need to bother with files\n    if chmod_files == 'auto':\n        chmod_files = on_windows\n\n    if not os.path.islink(path):\n        rotree(path, ro=False, chmod_files=chmod_files)\n        shutil.rmtree(path, *args, **kwargs)\n    else:\n        # just remove the symlink\n        os.unlink(path)\n\n\ndef rmtemp(f, *args, **kwargs):\n    \"\"\"Wrapper to centralize removing of temp files so we could keep them around\n\n    It will not remove the temporary file/directory if DATALAD_TESTS_KEEPTEMP\n    environment variable is defined\n    \"\"\"\n    if not os.environ.get('DATALAD_TESTS_KEEPTEMP'):\n        if not os.path.lexists(f):\n            lgr.debug(\"Path %s does not exist, so can't be removed\" % f)\n            return\n        lgr.log(5, \"Removing temp file: %s\" % f)\n        # Can also be a directory\n        if os.path.isdir(f):\n            rmtree(f, *args, **kwargs)\n        else:\n            for i in range(10):\n                try:\n                    os.unlink(f)\n                except OSError as e:\n                    if i < 9:\n                        sleep(0.1)\n                        continue\n                    else:\n                        raise\n                break\n    else:\n        lgr.info(\"Keeping temp file: %s\" % f)\n\n\ndef file_basename(name, return_ext=False):\n    \"\"\"\n    Strips up to 2 extensions of length up to 4 characters and starting with alpha\n    not a digit, so we could get rid of .tar.gz etc\n    \"\"\"\n    bname = basename(name)\n    fbname = re.sub('(\\.[a-zA-Z_]\\S{1,4}){0,2}$', '', bname)\n    if return_ext:\n        return fbname, bname[len(fbname)+1:]\n    else:\n        return fbname\n\n\ndef escape_filename(filename):\n    \"\"\"Surround filename in \"\" and escape \" in the filename\n    \"\"\"\n    filename = filename.replace('\"', r'\\\"').replace('`', r'\\`')\n    filename = '\"%s\"' % filename\n    return filename\n\n\ndef encode_filename(filename):\n    \"\"\"Encode unicode filename\n    \"\"\"\n    if isinstance(filename, text_type):\n        return filename.encode(sys.getfilesystemencoding())\n    else:\n        return filename\n\nif on_windows:\n    def lmtime(filepath, mtime):\n        \"\"\"Set mtime for files.  On Windows a merely adapter to os.utime\n        \"\"\"\n        os.utime(filepath, (time.time(), mtime))\nelse:\n    def lmtime(filepath, mtime):\n        \"\"\"Set mtime for files, while not de-referencing symlinks.\n\n        To overcome absence of os.lutime\n\n        Works only on linux and OSX ATM\n        \"\"\"\n        from .cmd import Runner\n        # convert mtime to format touch understands [[CC]YY]MMDDhhmm[.SS]\n        smtime = time.strftime(\"%Y%m%d%H%M.%S\", time.localtime(mtime))\n        lgr.log(3, \"Setting mtime for %s to %s == %s\", filepath, mtime, smtime)\n        Runner().run(['touch', '-h', '-t', '%s' % smtime, filepath])\n        rfilepath = realpath(filepath)\n        if islink(filepath) and exists(rfilepath):\n            # trust noone - adjust also of the target file\n            # since it seemed like downloading under OSX (was it using curl?)\n            # didn't bother with timestamps\n            lgr.log(3, \"File is a symlink to %s Setting mtime for it to %s\",\n                    rfilepath, mtime)\n            os.utime(rfilepath, (time.time(), mtime))\n        # doesn't work on OSX\n        # Runner().run(['touch', '-h', '-d', '@%s' % mtime, filepath])\n\n\ndef assure_list(s):\n    \"\"\"Given not a list, would place it into a list. If None - empty list is returned\n\n    Parameters\n    ----------\n    s: list or anything\n    \"\"\"\n\n    if isinstance(s, list):\n        return s\n    elif isinstance(s, tuple):\n        return list(s)\n    elif s is None:\n        return []\n    else:\n        return [s]\n\n\ndef assure_list_from_str(s, sep='\\n'):\n    \"\"\"Given a multiline string convert it to a list of return None if empty\n\n    Parameters\n    ----------\n    s: str or list\n    \"\"\"\n\n    if not s:\n        return None\n\n    if isinstance(s, list):\n        return s\n    return s.split(sep)\n\n\ndef assure_dict_from_str(s, **kwargs):\n    \"\"\"Given a multiline string with key=value items convert it to a dictionary\n\n    Parameters\n    ----------\n    s: str or dict\n\n    Returns None if input s is empty\n    \"\"\"\n\n    if not s:\n        return None\n\n    if isinstance(s, dict):\n        return s\n\n    out = {}\n    for value_str in assure_list_from_str(s, **kwargs):\n        if '=' not in value_str:\n            raise ValueError(\"{} is not in key=value format\".format(repr(value_str)))\n        k, v = value_str.split('=', 1)\n        if k in out:\n            err  = \"key {} was already defined in {}, but new value {} was provided\".format(k, out, v)\n            raise ValueError(err)\n        out[k] = v\n    return out\n\n\ndef unique(seq, key=None):\n    \"\"\"Given a sequence return a list only with unique elements while maintaining order\n\n    This is the fastest solution.  See\n    https://www.peterbe.com/plog/uniqifiers-benchmark\n    and\n    http://stackoverflow.com/a/480227/1265472\n    for more information.\n    Enhancement -- added ability to compare for uniqueness using a key function\n\n    Parameters\n    ----------\n    seq:\n      Sequence to analyze\n    key: callable, optional\n      Function to call on each element so we could decide not on a full\n      element, but on its member etc\n    \"\"\"\n    seen = set()\n    seen_add = seen.add\n    if not key:\n        return [x for x in seq if not (x in seen or seen_add(x))]\n    else:\n        # OPT: could be optimized, since key is called twice, but for our cases\n        # should be just as fine\n        return [x for x in seq if not (key(x) in seen or seen_add(key(x)))]\n\n#\n# Decorators\n#\n\n# Borrowed from pandas\n# Copyright: 2011-2014, Lambda Foundry, Inc. and PyData Development Team\n# Licese: BSD-3\ndef optional_args(decorator):\n    \"\"\"allows a decorator to take optional positional and keyword arguments.\n        Assumes that taking a single, callable, positional argument means that\n        it is decorating a function, i.e. something like this::\n\n            @my_decorator\n            def function(): pass\n\n        Calls decorator with decorator(f, `*args`, `**kwargs`)\"\"\"\n\n    @wraps(decorator)\n    def wrapper(*args, **kwargs):\n        def dec(f):\n            return decorator(f, *args, **kwargs)\n\n        is_decorating = not kwargs and len(args) == 1 and isinstance(args[0], collections.Callable)\n        if is_decorating:\n            f = args[0]\n            args = []\n            return dec(f)\n        else:\n            return dec\n\n    return wrapper\n\n\n# TODO: just provide decorators for tempfile.mk* functions. This is ugly!\ndef get_tempfile_kwargs(tkwargs={}, prefix=\"\", wrapped=None):\n    \"\"\"Updates kwargs to be passed to tempfile. calls depending on env vars\n    \"\"\"\n    # operate on a copy of tkwargs to avoid any side-effects\n    tkwargs_ = tkwargs.copy()\n\n    # TODO: don't remember why I had this one originally\n    # if len(targs)<2 and \\\n    if 'prefix' not in tkwargs_:\n        tkwargs_['prefix'] = '_'.join(\n            ['datalad_temp'] +\n            ([prefix] if prefix else []) +\n            ([''] if (on_windows or not wrapped)\n                  else [wrapped.__name__]))\n\n    directory = os.environ.get('DATALAD_TESTS_TEMPDIR')\n    if directory and 'dir' not in tkwargs_:\n        tkwargs_['dir'] = directory\n\n    return tkwargs_\n\n@optional_args\ndef line_profile(func):\n    \"\"\"Q&D helper to line profile the function and spit out stats\n    \"\"\"\n    import line_profiler\n    prof = line_profiler.LineProfiler()\n\n    @wraps(func)\n    def newfunc(*args, **kwargs):\n        try:\n            pfunc = prof(func)\n            return pfunc(*args, **kwargs)\n        finally:\n            prof.print_stats()\n    return newfunc\n\n#\n# Context Managers\n#\n\nfrom contextlib import contextmanager\n\n@contextmanager\ndef swallow_outputs():\n    \"\"\"Context manager to help consuming both stdout and stderr, and print()\n\n    stdout is available as cm.out and stderr as cm.err whenever cm is the\n    yielded context manager.\n    Internally uses temporary files to guarantee absent side-effects of swallowing\n    into StringIO which lacks .fileno.\n\n    print mocking is necessary for some uses where sys.stdout was already bound\n    to original sys.stdout, thus mocking it later had no effect. Overriding\n    print function had desired effect\n    \"\"\"\n\n    debugout = sys.stdout\n    class StringIOAdapter(object):\n        \"\"\"Little adapter to help getting out/err values\n        \"\"\"\n        def __init__(self):\n            kw = get_tempfile_kwargs({}, prefix=\"outputs\")\n\n            self._out = open(tempfile.mktemp(**kw), 'w')\n            self._err = open(tempfile.mktemp(**kw), 'w')\n\n        def _read(self, h):\n            with open(h.name) as f:\n                return f.read()\n\n        @property\n        def out(self):\n            self._out.flush()\n            return self._read(self._out)\n\n        @property\n        def err(self):\n            self._err.flush()\n            return self._read(self._err)\n\n        @property\n        def handles(self):\n            return self._out, self._err\n\n        def cleanup(self):\n            self._out.close()\n            self._err.close()\n            out_name = self._out.name\n            err_name = self._err.name\n            del self._out\n            del self._err\n            gc.collect()\n            rmtemp(out_name)\n            rmtemp(err_name)\n\n\n\n    def fake_print(*args, **kwargs):\n        sep = kwargs.pop('sep', ' ')\n        end = kwargs.pop('end', '\\n')\n        file = kwargs.pop('file', sys.stdout)\n\n        if file in (oldout, olderr, sys.stdout, sys.stderr):\n            # we mock\n            sys.stdout.write(sep.join(args) + end)\n        else:\n            # must be some other file one -- leave it alone\n            oldprint(*args, sep=sep, end=end, file=file)\n\n    from .ui import ui\n    # preserve -- they could have been mocked already\n    oldprint = getattr(__builtin__, 'print')\n    oldout, olderr = sys.stdout, sys.stderr\n    olduiout = ui.out\n    adapter = StringIOAdapter()\n\n    try:\n        sys.stdout, sys.stderr = adapter.handles\n        ui.out = adapter.handles[0]\n        setattr(__builtin__, 'print', fake_print)\n\n        yield adapter\n    finally:\n        sys.stdout, sys.stderr, ui.out = oldout, olderr, olduiout\n        setattr(__builtin__, 'print',  oldprint)\n        adapter.cleanup()\n\n\n@contextmanager\ndef swallow_logs(new_level=None, file_=None):\n    \"\"\"Context manager to consume all logs.\n\n    \"\"\"\n    lgr = logging.getLogger(\"datalad\")\n\n    # Keep old settings\n    old_level = lgr.level\n    old_handlers = lgr.handlers\n\n    # Let's log everything into a string\n    # TODO: generalize with the one for swallow_outputs\n    class StringIOAdapter(object):\n        \"\"\"Little adapter to help getting out values\n\n        And to stay consistent with how swallow_outputs behaves\n        \"\"\"\n        def __init__(self):\n            if file_ is None:\n                kw = get_tempfile_kwargs({}, prefix=\"logs\")\n                out_file = tempfile.mktemp(**kw)\n            else:\n                out_file = file_\n            # PY3 requires clearly one or another.  race condition possible\n            self._out = open(out_file, 'a')\n            self._final_out = None\n\n        def _read(self, h):\n            with open(h.name) as f:\n                return f.read()\n\n        @property\n        def out(self):\n            if self._final_out is not None:\n                # we closed and cleaned up already\n                return self._final_out\n            else:\n                self._out.flush()\n                return self._read(self._out)\n\n        @property\n        def lines(self):\n            return self.out.split('\\n')\n\n        @property\n        def handle(self):\n            return self._out\n\n        def cleanup(self):\n            # store for access while object exists\n            self._final_out = self.out\n            self._out.close()\n            out_name = self._out.name\n            del self._out\n            gc.collect()\n            if not file_:\n                rmtemp(out_name)\n\n        def assert_logged(self, msg=None, level=None, regex=True, **kwargs):\n            \"\"\"Provide assertion on either a msg was logged at a given level\n\n            If neither `msg` nor `level` provided, checks if anything was logged\n            at all.\n\n            Parameters\n            ----------\n            msg: str, optional\n              Message (as a regular expression, if `regex`) to be searched.\n              If no msg provided, checks if anything was logged at a given level.\n            level: str, optional\n              String representing the level to be logged\n            regex: bool, optional\n              If False, regular `assert_in` is used\n            **kwargs: str, optional\n              Passed to `assert_re_in` or `assert_in`\n            \"\"\"\n            from datalad.tests.utils import assert_re_in\n            from datalad.tests.utils import assert_in\n\n            if regex:\n                match = '\\[%s\\] ' % level if level else \"\\[\\S+\\] \"\n            else:\n                match = '[%s] ' % level if level else ''\n\n            if msg:\n                match += msg\n\n            if match:\n                (assert_re_in if regex else assert_in)(match, self.out, **kwargs)\n            else:\n                assert not kwargs, \"no kwargs to be passed anywhere\"\n                assert self.out, \"Nothing was logged!?\"\n\n\n    adapter = StringIOAdapter()\n    # TODO: it does store messages but without any formatting, i.e. even without\n    # date/time prefix etc.  IMHO it should preserve formatting in case if file_ is\n    # set\n    swallow_handler = logging.StreamHandler(adapter.handle)\n    # we want to log levelname so we could test against it\n    swallow_handler.setFormatter(\n        logging.Formatter('[%(levelname)s] %(message)s'))\n    lgr.handlers = [swallow_handler]\n    if old_level < logging.DEBUG:  # so if HEAVYDEBUG etc -- show them!\n        lgr.handlers += old_handlers\n\n    if isinstance(new_level, str):\n        new_level = getattr(logging, new_level)\n\n    if new_level is not None:\n        lgr.setLevel(new_level)\n\n    try:\n        yield adapter\n        # TODO: if file_ and there was an exception -- most probably worth logging it?\n        # although ideally it should be the next log outside added to that file_ ... oh well\n    finally:\n        lgr.handlers, lgr.level = old_handlers, old_level\n        adapter.cleanup()\n\n\n#\n# Additional handlers\n#\n_sys_excepthook = sys.excepthook  # Just in case we ever need original one\ndef setup_exceptionhook(ipython=False):\n    \"\"\"Overloads default sys.excepthook with our exceptionhook handler.\n\n       If interactive, our exceptionhook handler will invoke\n       pdb.post_mortem; if not interactive, then invokes default handler.\n    \"\"\"\n\n    def _datalad_pdb_excepthook(type, value, tb):\n        import traceback\n        traceback.print_exception(type, value, tb)\n        print()\n        if is_interactive():\n            import pdb\n            pdb.post_mortem(tb)\n\n    if ipython:\n        from IPython.core import ultratb\n        sys.excepthook = ultratb.FormattedTB(mode='Verbose',\n                                             # color_scheme='Linux',\n                                             call_pdb=is_interactive())\n    else:\n        sys.excepthook = _datalad_pdb_excepthook\n\n\ndef assure_dir(*args):\n    \"\"\"Make sure directory exists.\n\n    Joins the list of arguments to an os-specific path to the desired\n    directory and creates it, if it not exists yet.\n    \"\"\"\n    dirname = opj(*args)\n    if not exists(dirname):\n        os.makedirs(dirname)\n    return dirname\n\ndef updated(d, update):\n    \"\"\"Return a copy of the input with the 'update'\n\n    Primarily for updating dictionaries\n    \"\"\"\n    d = d.copy()\n    d.update(update)\n    return d\n\ndef getpwd():\n    \"\"\"Try to return a CWD without dereferencing possible symlinks\n\n    If no PWD found in the env, output of getcwd() is returned\n    \"\"\"\n    try:\n        return os.environ['PWD']\n    except KeyError:\n        return os.getcwd()\n\nclass chpwd(object):\n    \"\"\"Wrapper around os.chdir which also adjusts environ['PWD']\n\n    The reason is that otherwise PWD is simply inherited from the shell\n    and we have no ability to assess directory path without dereferencing\n    symlinks.\n\n    If used as a context manager it allows to temporarily change directory\n    to the given path\n    \"\"\"\n    def __init__(self, path, mkdir=False, logsuffix=''):\n\n        if path:\n            pwd = getpwd()\n            self._prev_pwd = pwd\n        else:\n            self._prev_pwd = None\n            return\n\n        if not isabs(path):\n            path = normpath(opj(pwd, path))\n        if not os.path.exists(path) and mkdir:\n            self._mkdir = True\n            os.mkdir(path)\n        else:\n            self._mkdir = False\n        lgr.debug(\"chdir %r -> %r %s\", self._prev_pwd, path, logsuffix)\n        os.chdir(path)  # for grep people -- ok, to chdir here!\n        os.environ['PWD'] = path\n\n    def __enter__(self):\n        # nothing more to do really, chdir was in the constructor\n        pass\n\n    def __exit__(self, exc_type, exc_val, exc_tb):\n        if self._prev_pwd:\n            # Need to use self.__class__ so this instance, if the entire\n            # thing mocked during the test, still would use correct chpwd\n            self.__class__(self._prev_pwd, logsuffix=\"(coming back)\")\n\n\ndef knows_annex(path):\n    \"\"\"Returns whether at a given path there is information about an annex\n\n    It is just a thin wrapper around GitRepo.is_with_annex() classmethod\n    which also checks for `path` to exist first.\n\n    This includes actually present annexes, but also uninitialized ones, or\n    even the presence of a remote annex branch.\n    \"\"\"\n    from os.path import exists\n    if not exists(path):\n        lgr.debug(\"No annex: test path {0} doesn't exist\".format(path))\n        return False\n    from datalad.support.gitrepo import GitRepo\n    return GitRepo(path, init=False, create=False).is_with_annex()\n\n\n@contextmanager\ndef make_tempfile(content=None, wrapped=None, **tkwargs):\n    \"\"\"Helper class to provide a temporary file name and remove it at the end (context manager)\n\n    Parameters\n    ----------\n    mkdir : bool, optional (default: False)\n        If True, temporary directory created using tempfile.mkdtemp()\n    content : str or bytes, optional\n        Content to be stored in the file created\n    wrapped : function, optional\n        If set, function name used to prefix temporary file name\n    `**tkwargs`:\n        All other arguments are passed into the call to tempfile.mk{,d}temp(),\n        and resultant temporary filename is passed as the first argument into\n        the function t.  If no 'prefix' argument is provided, it will be\n        constructed using module and function names ('.' replaced with\n        '_').\n\n    To change the used directory without providing keyword argument 'dir' set\n    DATALAD_TESTS_TEMPDIR.\n\n    Examples\n    --------\n        >>> from os.path import exists\n        >>> from datalad.utils import make_tempfile\n        >>> with make_tempfile() as fname:\n        ...    k = open(fname, 'w').write('silly test')\n        >>> assert not exists(fname)  # was removed\n\n        >>> with make_tempfile(content=\"blah\") as fname:\n        ...    assert open(fname).read() == \"blah\"\n    \"\"\"\n\n    if tkwargs.get('mkdir', None) and content is not None:\n        raise ValueError(\"mkdir=True while providing content makes no sense\")\n\n    tkwargs_ = get_tempfile_kwargs(tkwargs, wrapped=wrapped)\n\n    # if DATALAD_TESTS_TEMPDIR is set, use that as directory,\n    # let mktemp handle it otherwise. However, an explicitly provided\n    # dir=... will override this.\n    mkdir = tkwargs_.pop('mkdir', False)\n\n    filename = {False: tempfile.mktemp,\n                True: tempfile.mkdtemp}[mkdir](**tkwargs_)\n    filename = realpath(filename)\n\n    if content:\n        with open(filename, 'w' + ('b' if isinstance(content, binary_type) else '')) as f:\n            f.write(content)\n\n    if __debug__:\n        # TODO mkdir\n        lgr.debug('Created temporary thing named %s\"' % filename)\n    try:\n        yield filename\n    finally:\n        # glob here for all files with the same name (-suffix)\n        # would be useful whenever we requested .img filename,\n        # and function creates .hdr as well\n        lsuffix = len(tkwargs_.get('suffix', ''))\n        filename_ = lsuffix and filename[:-lsuffix] or filename\n        filenames = glob.glob(filename_ + '*')\n        if len(filename_) < 3 or len(filenames) > 5:\n            # For paranoid yoh who stepped into this already ones ;-)\n            lgr.warning(\"It is unlikely that it was intended to remove all\"\n                        \" files matching %r. Skipping\" % filename_)\n            return\n        for f in filenames:\n            try:\n                rmtemp(f)\n            except OSError:\n                pass\n\n\ndef _path_(*p):\n    \"\"\"Given a path in POSIX\" notation, regenerate one in native to the env one\"\"\"\n    if on_windows:\n        return opj(*map(lambda x: x.split('/'), p))\n    else:\n        # Assume that all others as POSIX compliant so nothing to be done\n        return opj(*p)\n\n\ndef get_timestamp_suffix(time_=None, prefix='-'):\n    \"\"\"Return a time stamp (full date and time up to second)\n\n    primarily to be used for generation of log files names\n    \"\"\"\n    args = []\n    if time_ is not None:\n        if isinstance(time_, int):\n            time_ = time.gmtime(time_)\n        args.append(time_)\n    return time.strftime(prefix + TIMESTAMP_FMT, *args)\n\n\ndef get_logfilename(dspath, cmd='datalad'):\n    \"\"\"Return a filename to use for logging under a dataset/repository\n\n    directory would be created if doesn't exist, but dspath must exist\n    and be a directory\n    \"\"\"\n    assert(exists(dspath))\n    assert(isdir(dspath))\n    ds_logdir = assure_dir(dspath, '.git', 'datalad', 'logs')  # TODO: use WEB_META_LOG whenever #789 merged\n    return opj(ds_logdir, 'crawl-%s.log' % get_timestamp_suffix())\n\n\nlgr.log(5, \"Done importing datalad.utils\")\n",
            "header": {
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                            "file_name": "datalad/utils.py",
                            "type": "function",
                            "name": "swallow_logs",
                            "content": "def swallow_logs(new_level=None, file_=None):\n    \"\"\"Context manager to consume all logs.\n\n    \"\"\"\n    lgr = logging.getLogger(\"datalad\")\n\n    # Keep old settings\n    old_level = lgr.level\n    old_handlers = lgr.handlers\n\n    # Let's log everything into a string\n    # TODO: generalize with the one for swallow_outputs\n    class StringIOAdapter(object):\n        \"\"\"Little adapter to help getting out values\n\n        And to stay consistent with how swallow_outputs behaves\n        \"\"\"\n        def __init__(self):\n            if file_ is None:\n                kw = get_tempfile_kwargs({}, prefix=\"logs\")\n                out_file = tempfile.mktemp(**kw)\n            else:\n                out_file = file_\n            # PY3 requires clearly one or another.  race condition possible\n            self._out = open(out_file, 'a')\n            self._final_out = None\n\n        def _read(self, h):\n            with open(h.name) as f:\n                return f.read()\n\n        @property\n        def out(self):\n            if self._final_out is not None:\n                # we closed and cleaned up already\n                return self._final_out\n            else:\n                self._out.flush()\n                return self._read(self._out)\n\n        @property\n        def lines(self):\n            return self.out.split('\\n')\n\n        @property\n        def handle(self):\n            return self._out\n\n        def cleanup(self):\n            # store for access while object exists\n            self._final_out = self.out\n            self._out.close()\n            out_name = self._out.name\n            del self._out\n            gc.collect()\n            if not file_:\n                rmtemp(out_name)\n\n        def assert_logged(self, msg=None, level=None, **kwargs):\n            \"\"\"Provide assertion on either a msg was logged at a given level\n\n            If neither `msg` nor `level` provided, checks if anything was logged\n            at all.\n\n            Parameters\n            ----------\n            msg: str, optional\n              Message (as a regular expression) to be searched.\n              If no msg provided, checks if anything was logged at a given level.\n            level: str, optional\n              String representing the level to be logged\n            **kwargs: str, optional\n              Passed to `assert_re_in`\n            \"\"\"\n            from datalad.tests.utils import assert_re_in\n            regex = '\\[%s\\] ' % level if level else \"\\[\\S+\\] \"\n            if msg:\n                regex += msg\n\n            if regex:\n                assert_re_in(regex, self.out, **kwargs)\n            else:\n                assert not kwargs, \"no kwargs to be passed anywhere\"\n                assert self.out, \"Nothing was logged!?\"\n\n\n    adapter = StringIOAdapter()\n    # TODO: it does store messages but without any formatting, i.e. even without\n    # date/time prefix etc.  IMHO it should preserve formatting in case if file_ is\n    # set\n    swallow_handler = logging.StreamHandler(adapter.handle)\n    # we want to log levelname so we could test against it\n    swallow_handler.setFormatter(\n        logging.Formatter('[%(levelname)s] %(message)s'))\n    lgr.handlers = [swallow_handler]\n    if old_level < logging.DEBUG:  # so if HEAVYDEBUG etc -- show them!\n        lgr.handlers += old_handlers\n\n    if isinstance(new_level, str):\n        new_level = getattr(logging, new_level)\n\n    if new_level is not None:\n        lgr.setLevel(new_level)\n\n    try:\n        yield adapter\n        # TODO: if file_ and there was an exception -- most probably worth logging it?\n        # although ideally it should be the next log outside added to that file_ ... oh well\n    finally:\n        lgr.handlers, lgr.level = old_handlers, old_level\n        adapter.cleanup()",
                            "ast_type_str": "FunctionDef",
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                            {
                                "content": "            Parameters",
                                "type": "context"
                            },
                            {
                                "content": "            ----------",
                                "type": "context"
                            },
                            {
                                "content": "            msg: str, optional",
                                "type": "context"
                            },
                            {
                                "content": "              Message (as a regular expression) to be searched.",
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                            },
                            {
                                "content": "              Message (as a regular expression, if `regex`) to be searched.",
                                "type": "added"
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                                "content": "              If no msg provided, checks if anything was logged at a given level.",
                                "type": "context"
                            },
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                                "content": "            level: str, optional",
                                "type": "context"
                            },
                            {
                                "content": "              String representing the level to be logged",
                                "type": "context"
                            },
                            {
                                "content": "            regex: bool, optional",
                                "type": "added"
                            },
                            {
                                "content": "              If False, regular `assert_in` is used",
                                "type": "added"
                            },
                            {
                                "content": "            **kwargs: str, optional",
                                "type": "context"
                            },
                            {
                                "content": "              Passed to `assert_re_in`",
                                "type": "deleted"
                            },
                            {
                                "content": "              Passed to `assert_re_in` or `assert_in`",
                                "type": "added"
                            },
                            {
                                "content": "            \"\"\"",
                                "type": "context"
                            },
                            {
                                "content": "            from datalad.tests.utils import assert_re_in",
                                "type": "context"
                            },
                            {
                                "content": "            regex = '\\[%s\\] ' % level if level else \"\\[\\S+\\] \"",
                                "type": "deleted"
                            },
                            {
                                "content": "            if msg:",
                                "type": "deleted"
                            },
                            {
                                "content": "                regex += msg",
                                "type": "deleted"
                            },
                            {
                                "content": "            from datalad.tests.utils import assert_in",
                                "type": "added"
                            },
                            {
                                "content": "",
                                "type": "context"
                            },
                            {
                                "content": "            if regex:",
                                "type": "context"
                            },
                            {
                                "content": "                assert_re_in(regex, self.out, **kwargs)",
                                "type": "deleted"
                            },
                            {
                                "content": "                match = '\\[%s\\] ' % level if level else \"\\[\\S+\\] \"",
                                "type": "added"
                            },
                            {
                                "content": "            else:",
                                "type": "added"
                            },
                            {
                                "content": "                match = '[%s] ' % level if level else ''",
                                "type": "added"
                            },
                            {
                                "content": "",
                                "type": "added"
                            },
                            {
                                "content": "            if msg:",
                                "type": "added"
                            },
                            {
                                "content": "                match += msg",
                                "type": "added"
                            },
                            {
                                "content": "",
                                "type": "added"
                            },
                            {
                                "content": "            if match:",
                                "type": "added"
                            },
                            {
                                "content": "                (assert_re_in if regex else assert_in)(match, self.out, **kwargs)",
                                "type": "added"
                            },
                            {
                                "content": "            else:",
                                "type": "context"
                            },
                            {
                                "content": "                assert not kwargs, \"no kwargs to be passed anywhere\"",
                                "type": "context"
                            },
                            {
                                "content": "                assert self.out, \"Nothing was logged!?\"",
                                "type": "context"
                            },
                            {
                                "content": "",
                                "type": "context"
                            }
                        ]
                    },
                    "modified_entities": [
                        {
                            "file_name": "datalad/utils.py",
                            "type": "function",
                            "name": "swallow_logs",
                            "content": "def swallow_logs(new_level=None, file_=None):\n    \"\"\"Context manager to consume all logs.\n\n    \"\"\"\n    lgr = logging.getLogger(\"datalad\")\n\n    # Keep old settings\n    old_level = lgr.level\n    old_handlers = lgr.handlers\n\n    # Let's log everything into a string\n    # TODO: generalize with the one for swallow_outputs\n    class StringIOAdapter(object):\n        \"\"\"Little adapter to help getting out values\n\n        And to stay consistent with how swallow_outputs behaves\n        \"\"\"\n        def __init__(self):\n            if file_ is None:\n                kw = get_tempfile_kwargs({}, prefix=\"logs\")\n                out_file = tempfile.mktemp(**kw)\n            else:\n                out_file = file_\n            # PY3 requires clearly one or another.  race condition possible\n            self._out = open(out_file, 'a')\n            self._final_out = None\n\n        def _read(self, h):\n            with open(h.name) as f:\n                return f.read()\n\n        @property\n        def out(self):\n            if self._final_out is not None:\n                # we closed and cleaned up already\n                return self._final_out\n            else:\n                self._out.flush()\n                return self._read(self._out)\n\n        @property\n        def lines(self):\n            return self.out.split('\\n')\n\n        @property\n        def handle(self):\n            return self._out\n\n        def cleanup(self):\n            # store for access while object exists\n            self._final_out = self.out\n            self._out.close()\n            out_name = self._out.name\n            del self._out\n            gc.collect()\n            if not file_:\n                rmtemp(out_name)\n\n        def assert_logged(self, msg=None, level=None, **kwargs):\n            \"\"\"Provide assertion on either a msg was logged at a given level\n\n            If neither `msg` nor `level` provided, checks if anything was logged\n            at all.\n\n            Parameters\n            ----------\n            msg: str, optional\n              Message (as a regular expression) to be searched.\n              If no msg provided, checks if anything was logged at a given level.\n            level: str, optional\n              String representing the level to be logged\n            **kwargs: str, optional\n              Passed to `assert_re_in`\n            \"\"\"\n            from datalad.tests.utils import assert_re_in\n            regex = '\\[%s\\] ' % level if level else \"\\[\\S+\\] \"\n            if msg:\n                regex += msg\n\n            if regex:\n                assert_re_in(regex, self.out, **kwargs)\n            else:\n                assert not kwargs, \"no kwargs to be passed anywhere\"\n                assert self.out, \"Nothing was logged!?\"\n\n\n    adapter = StringIOAdapter()\n    # TODO: it does store messages but without any formatting, i.e. even without\n    # date/time prefix etc.  IMHO it should preserve formatting in case if file_ is\n    # set\n    swallow_handler = logging.StreamHandler(adapter.handle)\n    # we want to log levelname so we could test against it\n    swallow_handler.setFormatter(\n        logging.Formatter('[%(levelname)s] %(message)s'))\n    lgr.handlers = [swallow_handler]\n    if old_level < logging.DEBUG:  # so if HEAVYDEBUG etc -- show them!\n        lgr.handlers += old_handlers\n\n    if isinstance(new_level, str):\n        new_level = getattr(logging, new_level)\n\n    if new_level is not None:\n        lgr.setLevel(new_level)\n\n    try:\n        yield adapter\n        # TODO: if file_ and there was an exception -- most probably worth logging it?\n        # although ideally it should be the next log outside added to that file_ ... oh well\n    finally:\n        lgr.handlers, lgr.level = old_handlers, old_level\n        adapter.cleanup()",
                            "ast_type_str": "FunctionDef",
                            "start_lineno": 627,
                            "end_lineno": 737,
                            "parent": null
                        }
                    ],
                    "added_entities": [],
                    "deleted_entities": []
                }
            ]
        }
    ],
    "old_commit_hash": "a08c7915c33980f3bf3f796f9315490dc67425c5^",
    "new_commit_hash": "a08c7915c33980f3bf3f796f9315490dc67425c5",
    "commit_message": "ENH: allow to match log without regex",
    "commit_date": "2016-09-21T19:12:11-04:00",
    "metadata": {}
}
{
    "repo_name": "datalad",
    "new_commit_hash": "a08c7915c33980f3bf3f796f9315490dc67425c5",
    "test_file_codes": [
        "# emacs: -*- mode: python; py-indent-offset: 4; tab-width: 4; indent-tabs-mode: nil -*-\n# ex: set sts=4 ts=4 sw=4 noet:\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n#\n#   See COPYING file distributed along with the datalad package for the\n#   copyright and license terms.\n#\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n\"\"\"Test testing utilities\n\n\"\"\"\n\nimport os\nimport shutil\nimport sys\nimport logging\nfrom mock import patch\nfrom six import PY3\n\nfrom operator import itemgetter\nfrom os.path import dirname, normpath, pardir, basename\nfrom os.path import isabs, expandvars, expanduser\nfrom collections import OrderedDict\n\nfrom datalad.dochelpers import exc_str\nfrom datalad.utils import updated\nfrom os.path import join as opj, abspath, exists\nfrom datalad.utils import rotree, swallow_outputs, swallow_logs, setup_exceptionhook, md5sum\nfrom datalad.utils import getpwd, chpwd\nfrom datalad.utils import auto_repr\nfrom datalad.utils import find_files\nfrom datalad.utils import line_profile\nfrom datalad.utils import not_supported_on_windows\nfrom datalad.utils import file_basename\nfrom datalad.utils import expandpath, is_explicit_path\nfrom datalad.utils import knows_annex\nfrom datalad.utils import any_re_search\nfrom datalad.utils import unique\nfrom datalad.utils import get_func_kwargs_doc\nfrom datalad.utils import make_tempfile\nfrom datalad.utils import on_windows\nfrom datalad.utils import _path_\nfrom datalad.utils import get_timestamp_suffix\n\nfrom datalad.support.annexrepo import AnnexRepo\n\nfrom nose.tools import ok_, eq_, assert_false, assert_equal, assert_true\n\nfrom datalad.tests.utils import with_tempfile, assert_in, with_tree\nfrom datalad.tests.utils import SkipTest\nfrom datalad.tests.utils import assert_cwd_unchanged, skip_if_on_windows\nfrom datalad.tests.utils import assure_dict_from_str, assure_list_from_str\nfrom datalad.tests.utils import ok_generator\nfrom datalad.tests.utils import assert_not_in\nfrom datalad.tests.utils import assert_raises\nfrom datalad.tests.utils import ok_startswith\nfrom datalad.tests.utils import skip_if_no_module\n\n\ndef test_get_func_kwargs_doc():\n    def some_func(arg1, kwarg1=None, kwarg2=\"bu\"):\n        return\n    eq_(get_func_kwargs_doc(some_func), ['arg1', 'kwarg1', 'kwarg2'])\n\n\n@with_tempfile(mkdir=True)\ndef test_rotree(d):\n    d2 = opj(d, 'd1', 'd2')  # deep nested directory\n    f = opj(d2, 'f1')\n    os.makedirs(d2)\n    with open(f, 'w') as f_:\n        f_.write(\"LOAD\")\n    with swallow_logs():\n        ar = AnnexRepo(d2)\n    rotree(d)\n    # we shouldn't be able to delete anything UNLESS in \"crippled\" situation:\n    # root, or filesystem is FAT etc\n    # Theoretically annex should declare FS as crippled when ran as root, but\n    # see http://git-annex.branchable.com/bugs/decides_that_FS_is_crippled_under_cowbuilder___40__symlinks_supported_etc__41__/#comment-60c3cbe2710d6865fb9b7d6e247cd7aa\n    # so explicit 'or'\n    if not (ar.is_crippled_fs() or (os.getuid() == 0)):\n        assert_raises(OSError, os.unlink, f)\n        assert_raises(OSError, shutil.rmtree, d)\n        # but file should still be accessible\n        with open(f) as f_:\n            eq_(f_.read(), \"LOAD\")\n    # make it RW\n    rotree(d, False)\n    os.unlink(f)\n    shutil.rmtree(d)\n\n\ndef test_swallow_outputs():\n    with swallow_outputs() as cm:\n        eq_(cm.out, '')\n        sys.stdout.write(\"out normal\")\n        sys.stderr.write(\"out error\")\n        eq_(cm.out, 'out normal')\n        sys.stdout.write(\" and more\")\n        eq_(cm.out, 'out normal and more')  # incremental\n        eq_(cm.err, 'out error')\n        eq_(cm.err, 'out error')  # the same value if multiple times\n\n\n@with_tempfile\ndef test_swallow_logs(logfile):\n    lgr = logging.getLogger('datalad')\n    with swallow_logs(new_level=9) as cm:\n        eq_(cm.out, '')\n        lgr.log(8, \"very heavy debug\")\n        eq_(cm.out, '')  # not even visible at level 9\n        lgr.log(9, \"debug1\")\n        eq_(cm.out, 'debug1\\n')  # not even visible at level 9\n        lgr.info(\"info\")\n        eq_(cm.out, 'debug1\\ninfo\\n')  # not even visible at level 9\n    with swallow_logs(new_level=9, file_=logfile) as cm:\n        eq_(cm.out, '')\n        lgr.info(\"next info\")\n    from datalad.tests.utils import ok_file_has_content\n    ok_file_has_content(logfile, \"next info\", strip=True)\n\n\ndef test_swallow_logs_assert():\n    lgr = logging.getLogger('datalad.tests')\n    with swallow_logs(new_level=9) as cm:\n        # nothing was logged so should fail\n        assert_raises(AssertionError, cm.assert_logged)\n        lgr.info(\"something\")\n        cm.assert_logged(\"something\")\n        cm.assert_logged(level=\"INFO\")\n        cm.assert_logged(\"something\", level=\"INFO\")\n\n        # even with regex = False should match above\n        cm.assert_logged(\"something\", regex=False)\n        cm.assert_logged(level=\"INFO\", regex=False)\n        cm.assert_logged(\"something\", level=\"INFO\", regex=False)\n\n        # different level\n        assert_raises(AssertionError,\n                      cm.assert_logged, \"something\", level=\"DEBUG\")\n        assert_raises(AssertionError, cm.assert_logged, \"else\")\n\n        cm.assert_logged(\"some.hing\", level=\"INFO\")  # regex ;-)\n        # does match\n        assert_raises(AssertionError,\n                      cm.assert_logged, \"ome.hing\", level=\"INFO\")\n        # but we can change it\n        cm.assert_logged(\"some.hing\", level=\"INFO\", match=False)\n    # and we can continue doing checks after we left the cm block\n    cm.assert_logged(\"some.hing\", level=\"INFO\", match=False)\n\n\ndef _check_setup_exceptionhook(interactive):\n    old_exceptionhook = sys.excepthook\n\n    post_mortem_tb = []\n\n    def our_post_mortem(tb):\n        post_mortem_tb.append(tb)\n\n    with patch('sys.excepthook'), \\\n            patch('datalad.utils.is_interactive', lambda: interactive), \\\n            patch('pdb.post_mortem', our_post_mortem):\n        setup_exceptionhook()\n        our_exceptionhook = sys.excepthook\n        ok_(old_exceptionhook != our_exceptionhook)\n        #out = sys.stdout\n        with swallow_logs() as cml, swallow_outputs() as cmo:\n            # we need to call our_exceptionhook explicitly b/c nose\n            # swallows all Exceptions and hook never gets executed\n            try:\n                raise RuntimeError\n            except Exception as e:  # RuntimeError:\n                type_, value_, tb_ = sys.exc_info()\n            our_exceptionhook(type_, value_, tb_)\n            if PY3:\n                # Happens under tox environment but not in manually crafted ones -- not yet sure\n                # what it is about but --dbg does work with python3 so lettting it skip for now\n                raise SkipTest(\"TODO: Not clear why in PY3 calls cleanup if we try to access the beast\")\n            assert_in('Traceback (most recent call last)', cmo.err)\n            assert_in('in _check_setup_exceptionhook', cmo.err)\n            if interactive:\n                assert_equal(post_mortem_tb[0], tb_)\n            else:\n                assert_equal(post_mortem_tb, [])\n                # assert_in('We cannot setup exception hook', cml.out)\n\n    eq_(old_exceptionhook, sys.excepthook)\n\n\ndef test_setup_exceptionhook():\n    for tval in [True, False]:\n        yield _check_setup_exceptionhook, tval\n\n\ndef test_md5sum():\n    # just a smoke (encoding/decoding) test for md5sum\n    _ = md5sum(__file__)\n\n\n@with_tree([('1.tar.gz', (('1 f.txt', '1 f load'),))])\ndef test_md5sum_archive(d):\n    # just a smoke (encoding/decoding) test for md5sum\n    _ = md5sum(opj(d, '1.tar.gz'))\n\ndef test_updated():\n    d = {}\n    eq_(updated(d, {1: 2}), {1: 2})\n    eq_(d, {})\n\n    d = {'a': 'b'}\n    eq_(updated(d, ((0, 1), (2, 3))), {0: 1, 'a': 'b', 2: 3})\n    eq_(d, {'a': 'b'})\n\n    # and that it would maintain the type\n    d = OrderedDict(((99, 0), ('z', 0), ('a', 0)))\n    d_ = updated(d, {0: 1})\n    ok_(isinstance(d_, OrderedDict))\n    eq_(d_, OrderedDict(((99, 0), ('z', 0), ('a', 0), (0, 1))))\n\n\ndef test_get_local_file_url_windows():\n    raise SkipTest(\"TODO\")\n\n@assert_cwd_unchanged\ndef test_getpwd_basic():\n    pwd = getpwd()\n    ok_(isabs(pwd))\n    eq_(os.getcwd(), abspath(pwd))\n\n    # that we do not chdir anywhere if None provided\n    with patch('os.chdir') as oschdir:\n        with chpwd(None):\n            eq_(getpwd(), pwd)\n        assert_false(oschdir.called)\n\n\n@skip_if_on_windows\n@with_tempfile(mkdir=True)\n@assert_cwd_unchanged\ndef test_getpwd_symlink(tdir):\n    sdir = opj(tdir, 's1')\n    pwd_orig = getpwd()\n    os.symlink('.', sdir)\n    s1dir = opj(sdir, 's1')\n    s2dir = opj(sdir, 's2')\n    try:\n        chpwd(sdir)\n        pwd = getpwd()\n        eq_(pwd, sdir)\n        chpwd('s1')\n        eq_(getpwd(), s1dir)\n        chpwd('.')\n        eq_(getpwd(), s1dir)\n        chpwd('..')\n        eq_(getpwd(), sdir)\n    finally:\n        chpwd(pwd_orig)\n\n    # test context handler way of use\n    with chpwd(s1dir):\n        eq_(getpwd(), s1dir)\n    eq_(getpwd(), pwd_orig)\n\n    assert_false(exists(s2dir))\n    with assert_raises(OSError):\n        with chpwd(s2dir):\n            pass\n    with chpwd(s2dir, mkdir=True):\n        ok_(exists(s2dir))\n        eq_(getpwd(), s2dir)\n\n\ndef test_auto_repr():\n\n    class withoutrepr:\n        def __init__(self):\n            self.a = \"does not matter\"\n\n    @auto_repr\n    class buga:\n        def __init__(self):\n            self.a = 1\n            self.b = list(range(100))\n            self.c = withoutrepr()\n            self._c = \"protect me\"\n\n        def some(self):\n            return \"some\"\n\n    assert_equal(repr(buga()), \"buga(a=1, b=<<[0, 1, 2, 3, 4, 5, 6, ...>>, c=<withoutrepr>)\")\n    assert_equal(buga().some(), \"some\")\n\n\ndef test_assure_list_from_str():\n    assert_equal(assure_list_from_str(''), None)\n    assert_equal(assure_list_from_str([]), None)\n    assert_equal(assure_list_from_str('somestring'), ['somestring'])\n    assert_equal(assure_list_from_str('some\\nmultiline\\nstring'), ['some', 'multiline', 'string'])\n    assert_equal(assure_list_from_str(['something']), ['something'])\n    assert_equal(assure_list_from_str(['a', 'listof', 'stuff']), ['a', 'listof', 'stuff'])\n\n\ndef test_assure_dict_from_str():\n    assert_equal(assure_dict_from_str(''), None)\n    assert_equal(assure_dict_from_str({}), None)\n    assert_equal(assure_dict_from_str(\n            '__ac_name={user}\\n__ac_password={password}\\nsubmit=Log in\\ncookies_enabled='), dict(\n             __ac_name='{user}', __ac_password='{password}', cookies_enabled='', submit='Log in'))\n    assert_equal(assure_dict_from_str(\n        dict(__ac_name='{user}', __ac_password='{password}', cookies_enabled='', submit='Log in')), dict(\n             __ac_name='{user}', __ac_password='{password}', cookies_enabled='', submit='Log in'))\n\n\ndef test_any_re_search():\n    assert_true(any_re_search('a', 'a'))\n    assert_true(any_re_search('a', 'bab'))\n    assert_false(any_re_search('^a', 'bab'))\n    assert_true(any_re_search(['b', '.ab'], 'bab'))\n    assert_false(any_re_search(['^b', 'bab'], 'ab'))\n\n\ndef test_find_files():\n    tests_dir = dirname(__file__)\n    proj_dir = normpath(opj(dirname(__file__), pardir))\n\n    ff = find_files('.*', proj_dir)\n    ok_generator(ff)\n    files = list(ff)\n    assert(len(files) > 10)  # we have more than 10 test files here\n    assert_in(opj(tests_dir, 'test_utils.py'), files)\n    # and no directories should be mentioned\n    assert_not_in(tests_dir, files)\n\n    ff2 = find_files('.*', proj_dir, dirs=True)\n    files2 = list(ff2)\n    assert_in(opj(tests_dir, 'test_utils.py'), files2)\n    assert_in(tests_dir, files2)\n\n    # now actually matching the path\n    ff3 = find_files('.*/test_.*\\.py$', proj_dir, dirs=True)\n    files3 = list(ff3)\n    assert_in(opj(tests_dir, 'test_utils.py'), files3)\n    assert_not_in(tests_dir, files3)\n    for f in files3:\n        ok_startswith(basename(f), 'test_')\n\nfrom datalad.tests.utils import with_tree\n@with_tree(tree={\n    '.git': {\n        '1': '2'\n    },\n    'd1': {\n        '.git': 'possibly a link from submodule'\n    },\n    'git': 'just a file'\n})\ndef test_find_files_exclude_vcs(repo):\n    ff = find_files('.*', repo, dirs=True)\n    files = list(ff)\n    assert_equal({basename(f) for f in files}, {'d1', 'git'})\n    assert_not_in(opj(repo, '.git'), files)\n\n    ff = find_files('.*', repo, dirs=True, exclude_vcs=False)\n    files = list(ff)\n    assert_equal({basename(f) for f in files}, {'d1', 'git', '.git', '1'})\n    assert_in(opj(repo, '.git'), files)\n\n\ndef test_line_profile():\n    skip_if_no_module('line_profiler')\n\n    @line_profile\n    def f(j):\n        i = j + 1  # xyz\n        return i\n\n    with swallow_outputs() as cmo:\n        assert_equal(f(3), 4)\n        assert_equal(cmo.err, '')\n        assert_in('i = j + 1  # xyz', cmo.out)\n\n\ndef test_not_supported_on_windows():\n    with patch('datalad.utils.on_windows', True):\n        assert_raises(NotImplementedError, not_supported_on_windows)\n        assert_raises(NotImplementedError, not_supported_on_windows, \"msg\")\n\n    with patch('datalad.utils.on_windows', False):\n        assert_equal(not_supported_on_windows(), None)\n        assert_equal(not_supported_on_windows(\"msg\"), None)\n\n\ndef test_file_basename():\n    eq_(file_basename('1'), '1')\n    eq_(file_basename('d1/1'), '1')\n    eq_(file_basename('/d1/1'), '1')\n    eq_(file_basename('1.'), '1.')\n    eq_(file_basename('1.tar.gz'), '1')\n    eq_(file_basename('1.Tar.gz'), '1')\n    eq_(file_basename('1._bak.gz'), '1')\n    eq_(file_basename('1.tar.gz', return_ext=True), ('1', 'tar.gz'))\n    eq_(file_basename('/tmp/1.tar.gz'), '1')\n    eq_(file_basename('/tmp/1.longish.gz'), '1.longish')\n    eq_(file_basename('1_R1.1.1.tar.gz'), '1_R1.1.1')\n    eq_(file_basename('ds202_R1.1.1.tgz'), 'ds202_R1.1.1')\n\n\ndef test_expandpath():\n    eq_(expandpath(\"some\", False), expanduser('some'))\n    eq_(expandpath(\"some\", False), expandvars('some'))\n    assert_true(isabs(expandpath('some')))\n    # this may have to go because of platform issues\n    eq_(expandpath(\"$HOME\"), expanduser('~'))\n\n\ndef test_is_explicit_path():\n    # by default expanded paths are absolute, hence explicit\n    assert_true(is_explicit_path(expandpath('~')))\n    assert_false(is_explicit_path(\"here\"))\n\n\n@with_tempfile\n@with_tempfile\ndef test_knows_annex(here, there):\n    from datalad.support.gitrepo import GitRepo\n    from datalad.support.annexrepo import AnnexRepo\n    GitRepo(path=here, create=True)\n    assert_false(knows_annex(here))\n    AnnexRepo(path=here, create=True)\n    assert_true(knows_annex(here))\n    GitRepo(path=there, url=here, create=True)\n    assert_true(knows_annex(there))\n\n\ndef test_make_tempfile():\n    # check if mkdir, content conflict caught\n    with assert_raises(ValueError):\n        with make_tempfile(content=\"blah\", mkdir=True):  # pragma: no cover\n            pass\n\n\ndef test_unique():\n    eq_(unique(range(3)), [0, 1, 2])\n    eq_(unique((1, 0, 1, 3, 2, 0, 1)), [1, 0, 3, 2])\n    eq_(unique([]), [])\n    eq_(unique([(1, 2), (1,), (1, 2), (0, 3)]), [(1, 2), (1,), (0, 3)])\n\n    # with a key now\n    eq_(unique([(1, 2), (1,), (1, 2), (0, 3)], key=itemgetter(0)), [(1, 2), (0, 3)])\n    eq_(unique([(1, 2), (1, 3), (1, 2), (0, 3)], key=itemgetter(1)), [(1, 2), (1, 3)])\n\n\ndef test_path_():\n    eq_(_path_('a'), 'a')\n    if on_windows:\n        eq_(_path_('a/b'), r'a\\b')\n    else:\n        p = 'a/b/c'\n        assert(_path_(p) is p)  # nothing is done to it whatsoever\n        eq_(_path_(p, 'd'), 'a/b/c/d')\n\n\ndef test_get_timestamp_suffix():\n    # we need to patch temporarily TZ\n    import time\n    try:\n        with patch.dict('os.environ', {'TZ': 'GMT'}):\n            time.tzset()\n            assert_equal(get_timestamp_suffix(0), '-1970-01-01T00:00:00+0000')  # skynet DOB\n            assert_equal(get_timestamp_suffix(0, prefix=\"+\"), '+1970-01-01T00:00:00+0000')\n            # yoh found no way to mock things out and didn't want to provide\n            # explicit call to anything to get current time with the timezone, so disabling\n            # this test for now besides that it should return smth sensible ;)\n            #with patch.object(time, 'localtime', lambda: 1):\n            #    assert_equal(get_timestamp_suffix(), '-1970-01-01T00:00:01+0000')  # skynet is 1 sec old\n            assert(get_timestamp_suffix().startswith('-'))\n    finally:\n        time.tzset()\n",
        "import pytest\nimport tempfile\nimport os\n\n\n@pytest.fixture\ndef path():\n    with tempfile.TemporaryDirectory() as tmpdir:\n        yield tmpdir\n\n\n@pytest.fixture(autouse=True)\ndef setup_git_config():\n    with tempfile.TemporaryDirectory() as home:\n        old_home = os.environ.get(\"HOME\")\n        os.environ[\"HOME\"] = home\n        os.system('git config --global user.name \"DataLad Tester\"')\n        os.system('git config --global user.email \"test@example.com\"')\n        yield\n        if old_home:\n            os.environ[\"HOME\"] = old_home\n"
    ],
    "test_file_names": [
        "test_1.py",
        "conftest.py"
    ],
    "setup_res_code": 0,
    "setup_res_stdout": "Starting Datalad installation attempts...\nVerifying installation...\n❌ Verification failed\nPython 3.9 installation failed, trying Python 3.7...\nVerifying installation...\nDatalad version: 0.2.3\n✅ Installation successful!\nSuccessfully installed Datalad using Python 3.7\n",
    "setup_res_stderr": "Using CPython 3.9.21\nCreating virtual environment at: .venv\nActivate with: source .venv/bin/activate\nResolved 25 packages in 122ms\nInstalled 25 packages in 5.61s\n + coverage==7.6.10\n + docopt==0.6.2\n + exceptiongroup==1.2.2\n + grabbit==0.2.6\n + importlib-resources==6.4.5\n + iniconfig==2.0.0\n + nibabel==5.3.2\n + num2words==0.5.14\n + numpy==2.0.2\n + packaging==24.2\n + pandas==2.2.3\n + patsy==1.0.1\n + pluggy==1.5.0\n + pybids==0.6.5\n + pytest==8.3.4\n + pytest-cov==6.0.0\n + python-dateutil==2.9.0.post0\n + pytz==2024.2\n + scipy==1.13.1\n + setuptools==75.6.0\n + six==1.17.0\n + tomli==2.2.1\n + typing-extensions==4.12.2\n + tzdata==2024.2\n + zipp==3.21.0\nerror: The build backend returned an error\n  Caused by: Call to `setuptools.build_meta:__legacy__.build_editable` failed (exit status: 1)\n\n[stderr]\nTraceback (most recent call last):\n  File \"<string>\", line 14, in <module>\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpzryS1H/lib/python3.9/site-packages/setuptools/build_meta.py\", line 483, in get_requires_for_build_editable\n    return self.get_requires_for_build_wheel(config_settings)\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpzryS1H/lib/python3.9/site-packages/setuptools/build_meta.py\", line 334, in get_requires_for_build_wheel\n    return self._get_build_requires(config_settings, requirements=[])\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpzryS1H/lib/python3.9/site-packages/setuptools/build_meta.py\", line 304, in _get_build_requires\n    self.run_setup()\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpzryS1H/lib/python3.9/site-packages/setuptools/build_meta.py\", line 522, in run_setup\n    super().run_setup(setup_script=setup_script)\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpzryS1H/lib/python3.9/site-packages/setuptools/build_meta.py\", line 320, in run_setup\n    exec(code, locals())\n  File \"<string>\", line 49, in <module>\nAttributeError: module 'platform' has no attribute 'dist'\n\nhint: This usually indicates a problem with the package or the build environment.\nerror: The build backend returned an error\n  Caused by: Call to `setuptools.build_meta:__legacy__.build_editable` failed (exit status: 1)\n\n[stderr]\nTraceback (most recent call last):\n  File \"<string>\", line 14, in <module>\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpeoLOnZ/lib/python3.9/site-packages/setuptools/build_meta.py\", line 483, in get_requires_for_build_editable\n    return self.get_requires_for_build_wheel(config_settings)\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpeoLOnZ/lib/python3.9/site-packages/setuptools/build_meta.py\", line 334, in get_requires_for_build_wheel\n    return self._get_build_requires(config_settings, requirements=[])\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpeoLOnZ/lib/python3.9/site-packages/setuptools/build_meta.py\", line 304, in _get_build_requires\n    self.run_setup()\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpeoLOnZ/lib/python3.9/site-packages/setuptools/build_meta.py\", line 522, in run_setup\n    super().run_setup(setup_script=setup_script)\n  File \"/home/gcpuser/.cache/uv/builds-v0/.tmpeoLOnZ/lib/python3.9/site-packages/setuptools/build_meta.py\", line 320, in run_setup\n    exec(code, locals())\n  File \"<string>\", line 49, in <module>\nAttributeError: module 'platform' has no attribute 'dist'\n\nhint: This usually indicates a problem with the package or the build environment.\nTraceback (most recent call last):\n  File \"<string>\", line 1, in <module>\n  File \"/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/datalad/__init__.py\", line 17, in <module>\n    from .config import ConfigManager\n  File \"/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/datalad/config.py\", line 17, in <module>\n    from appdirs import AppDirs\nModuleNotFoundError: No module named 'appdirs'\nUsing CPython 3.7.9\nCreating virtual environment at: .venv\nActivate with: source .venv/bin/activate\nResolved 26 packages in 210ms\nInstalled 26 packages in 4.82s\n + bids==0.0\n + coverage==7.2.7\n + docopt==0.6.2\n + exceptiongroup==1.2.2\n + fasteners==0.19\n + grabbit==0.2.6\n + importlib-metadata==6.7.0\n + iniconfig==2.0.0\n + nibabel==4.0.2\n + num2words==0.5.14\n + numpy==1.21.6\n + packaging==24.0\n + pandas==1.3.5\n + patsy==1.0.1\n + pluggy==1.2.0\n + pybids==0.6.5\n + pytest==7.4.4\n + pytest-cov==4.1.0\n + python-dateutil==2.9.0.post0\n + pytz==2024.2\n + scipy==1.7.3\n + setuptools==68.0.0\n + six==1.17.0\n + tomli==2.0.1\n + typing-extensions==4.7.1\n + zipp==3.15.0\nResolved 73 packages in 3.82s\nPrepared 1 package in 2.35s\nInstalled 67 packages in 93ms\n + appdirs==1.4.4\n + attrs==24.2.0\n + automat==22.10.0\n + beautifulsoup4==4.12.3\n + boto==2.49.0\n + cachetools==5.5.0\n + certifi==2024.12.14\n + cffi==1.15.1\n + charset-normalizer==3.4.1\n + constantly==15.1.0\n + cryptography==44.0.0\n + cssselect==1.2.0\n + datalad==0.2.3 (from file:///home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5)\n + filelock==3.12.2\n + frozendict==2.4.6\n + gitdb==4.0.12\n + gitpython==3.1.44\n + httpretty==1.1.4\n + humanize==4.6.0\n + hyperlink==21.0.0\n + idna==3.10\n + importlib-resources==5.12.0\n + incremental==22.10.0\n + iso8601==2.1.0\n + itemadapter==0.8.0\n + itemloaders==1.1.0\n + jaraco-classes==3.2.3\n + jeepney==0.8.0\n + jmespath==1.0.1\n + jsmin==3.0.1\n + keyring==24.1.1\n + keyrings-alt==4.2.0\n + lxml==5.3.0\n + mock==5.1.0\n + more-itertools==9.1.0\n + msgpack-python==0.5.6\n + multidict==6.0.5\n + nose==1.3.7\n + parsel==1.8.1\n + patool==1.12\n + protego==0.3.0\n + pyasn1==0.5.1\n + pyasn1-modules==0.3.0\n + pycparser==2.21\n + pydispatcher==2.0.7\n + pyld==2.0.4\n + pyopenssl==24.3.0\n + pyyaml==6.0.1\n + queuelib==1.6.2\n + requests==2.31.0\n + requests-file==2.1.0\n + requests-ftp==0.3.1\n + scrapy==2.9.0\n + secretstorage==3.3.3\n + service-identity==21.1.0\n + simplejson==3.19.3\n + smmap==5.0.2\n + soupsieve==2.4.1\n + tldextract==4.0.0\n + tqdm==4.67.1\n + twisted==23.8.0\n + urllib3==2.0.7\n + vcrpy==4.3.0\n + w3lib==2.1.2\n + wrapt==1.16.0\n + yarl==1.9.4\n + zope-interface==6.4.post2\nAudited 1 package in 36ms\n",
    "new_commit_res_code": 1,
    "new_commit_res_stdout": "============================= test session starts ==============================\nplatform linux -- Python 3.7.9, pytest-7.4.4, pluggy-1.2.0\nrootdir: /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5\nplugins: cov-4.1.0\ncollected 28 items\n\nr2e_tests/test_1.py .E.E.x.E.s.E....FEs....E....                         [100%]\n\n==================================== ERRORS ====================================\n________________________ ERROR at setup of test_rotree _________________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 66\n  @with_tempfile(mkdir=True)\n  def test_rotree(d):\nE       fixture 'd' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:66\n_____________________ ERROR at setup of test_swallow_logs ______________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 105\n  @with_tempfile\n  def test_swallow_logs(logfile):\nE       fixture 'logfile' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:105\n____________________ ERROR at setup of test_md5sum_archive _____________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 201\n  @with_tree([('1.tar.gz', (('1 f.txt', '1 f load'),))])\n  def test_md5sum_archive(d):\nE       fixture 'd' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:201\n____________________ ERROR at setup of test_getpwd_symlink _____________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 238\n  @skip_if_on_windows\n  @with_tempfile(mkdir=True)\n  @assert_cwd_unchanged\n  def test_getpwd_symlink(tdir):\nE       fixture 'tdir' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:238\n________________ ERROR at setup of test_find_files_exclude_vcs _________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 349\n  @with_tree(tree={\n      '.git': {\n          '1': '2'\n      },\n      'd1': {\n          '.git': 'possibly a link from submodule'\n      },\n      'git': 'just a file'\n  })\n  def test_find_files_exclude_vcs(repo):\nE       fixture 'repo' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:349\n______________________ ERROR at setup of test_knows_annex ______________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 423\n  @with_tempfile\n  @with_tempfile\n  def test_knows_annex(here, there):\nE       fixture 'here' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:423\n=================================== FAILURES ===================================\n_______________________________ test_find_files ________________________________\n\n    def test_find_files():\n        tests_dir = dirname(__file__)\n        proj_dir = normpath(opj(dirname(__file__), pardir))\n    \n        ff = find_files('.*', proj_dir)\n        ok_generator(ff)\n        files = list(ff)\n        assert(len(files) > 10)  # we have more than 10 test files here\n>       assert_in(opj(tests_dir, 'test_utils.py'), files)\n\nr2e_tests/test_1.py:331: \n_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ \n../../../../.local/share/uv/python/cpython-3.7.9-linux-x86_64-gnu/lib/python3.7/unittest/case.py:1119: in assertIn\n    self.fail(self._formatMessage(msg, standardMsg))\n_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ \n\nself = <nose.tools.trivial.Dummy testMethod=nop>\nmsg = \"'/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_ut.../buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/ci/prep-travis-forssh.sh']\"\n\n    def fail(self, msg=None):\n        \"\"\"Fail immediately, with the given message.\"\"\"\n>       raise self.failureException(msg)\nE       AssertionError: '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_utils.py' not found in ['/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/run_tests.sh', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/.mailmap', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/formatters.py', 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'/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/testing/travis_ifdown_nonlo.sh', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/testing/bad_internals/_scrapy/scrapy.py', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/testing/conf/apache-ssh-supervisor.conf', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/testing/conf/etc/apt/apt.conf.d/99apt-cacher', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/ci/prep-travis-forssh-sudo.sh', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/ci/gpg-90F7E9EB.pub', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/ci/prep-travis-forssh.sh']\n\n../../../../.local/share/uv/python/cpython-3.7.9-linux-x86_64-gnu/lib/python3.7/unittest/case.py:693: AssertionError\n==================================== PASSES ====================================\n___________________________ test_swallow_logs_assert ___________________________\n------------------------------ Captured log call -------------------------------\nINFO     datalad.tests:test_1.py:128 something\n=========================== short test summary info ============================\nPASSED r2e_tests/test_1.py::test_get_func_kwargs_doc\nPASSED r2e_tests/test_1.py::test_swallow_outputs\nPASSED r2e_tests/test_1.py::test_swallow_logs_assert\nPASSED r2e_tests/test_1.py::test_md5sum\nPASSED r2e_tests/test_1.py::test_updated\nPASSED r2e_tests/test_1.py::test_getpwd_basic\nPASSED r2e_tests/test_1.py::test_auto_repr\nPASSED r2e_tests/test_1.py::test_assure_list_from_str\nPASSED r2e_tests/test_1.py::test_assure_dict_from_str\nPASSED r2e_tests/test_1.py::test_any_re_search\nPASSED r2e_tests/test_1.py::test_not_supported_on_windows\nPASSED r2e_tests/test_1.py::test_file_basename\nPASSED r2e_tests/test_1.py::test_expandpath\nPASSED r2e_tests/test_1.py::test_is_explicit_path\nPASSED r2e_tests/test_1.py::test_make_tempfile\nPASSED r2e_tests/test_1.py::test_unique\nPASSED r2e_tests/test_1.py::test_path_\nPASSED r2e_tests/test_1.py::test_get_timestamp_suffix\nSKIPPED [1] .venv/lib/python3.7/site-packages/_pytest/unittest.py:371: TODO\nSKIPPED [1] .venv/lib/python3.7/site-packages/_pytest/unittest.py:371: Module line_profiler fails to load: No module named 'line_profiler' [utils.py:skip_if_no_module:66]\nXFAIL r2e_tests/test_1.py::test_setup_exceptionhook - reason: [NOTRUN] yield tests were removed in pytest 4.0 - test_setup_exceptionhook will be ignored\nERROR r2e_tests/test_1.py::test_rotree\nERROR r2e_tests/test_1.py::test_swallow_logs\nERROR r2e_tests/test_1.py::test_md5sum_archive\nERROR r2e_tests/test_1.py::test_getpwd_symlink\nERROR r2e_tests/test_1.py::test_find_files_exclude_vcs\nERROR r2e_tests/test_1.py::test_knows_annex\nFAILED r2e_tests/test_1.py::test_find_files - AssertionError: '/home/gcpuser/...\n========= 1 failed, 18 passed, 2 skipped, 1 xfailed, 6 errors in 2.71s =========\n",
    "new_commit_res_stderr": "",
    "old_commit_res_code": 1,
    "old_commit_res_stdout": "============================= test session starts ==============================\nplatform linux -- Python 3.7.9, pytest-7.4.4, pluggy-1.2.0\nrootdir: /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5\nplugins: cov-4.1.0\ncollected 28 items\n\nr2e_tests/test_1.py .E.EFx.E.s.E....FEs....E....                         [100%]\n\n==================================== ERRORS ====================================\n________________________ ERROR at setup of test_rotree _________________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 66\n  @with_tempfile(mkdir=True)\n  def test_rotree(d):\nE       fixture 'd' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:66\n_____________________ ERROR at setup of test_swallow_logs ______________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 105\n  @with_tempfile\n  def test_swallow_logs(logfile):\nE       fixture 'logfile' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:105\n____________________ ERROR at setup of test_md5sum_archive _____________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 201\n  @with_tree([('1.tar.gz', (('1 f.txt', '1 f load'),))])\n  def test_md5sum_archive(d):\nE       fixture 'd' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:201\n____________________ ERROR at setup of test_getpwd_symlink _____________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 238\n  @skip_if_on_windows\n  @with_tempfile(mkdir=True)\n  @assert_cwd_unchanged\n  def test_getpwd_symlink(tdir):\nE       fixture 'tdir' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:238\n________________ ERROR at setup of test_find_files_exclude_vcs _________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 349\n  @with_tree(tree={\n      '.git': {\n          '1': '2'\n      },\n      'd1': {\n          '.git': 'possibly a link from submodule'\n      },\n      'git': 'just a file'\n  })\n  def test_find_files_exclude_vcs(repo):\nE       fixture 'repo' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:349\n______________________ ERROR at setup of test_knows_annex ______________________\nfile /home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py, line 423\n  @with_tempfile\n  @with_tempfile\n  def test_knows_annex(here, there):\nE       fixture 'here' not found\n>       available fixtures: cache, capfd, capfdbinary, caplog, capsys, capsysbinary, cov, doctest_namespace, monkeypatch, no_cover, path, pytestconfig, record_property, record_testsuite_property, record_xml_attribute, recwarn, setup_git_config, tmp_path, tmp_path_factory, tmpdir, tmpdir_factory\n>       use 'pytest --fixtures [testpath]' for help on them.\n\n/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_1.py:423\n=================================== FAILURES ===================================\n___________________________ test_swallow_logs_assert ___________________________\n\n    def test_swallow_logs_assert():\n        lgr = logging.getLogger('datalad.tests')\n        with swallow_logs(new_level=9) as cm:\n            # nothing was logged so should fail\n            assert_raises(AssertionError, cm.assert_logged)\n            lgr.info(\"something\")\n            cm.assert_logged(\"something\")\n            cm.assert_logged(level=\"INFO\")\n            cm.assert_logged(\"something\", level=\"INFO\")\n    \n            # even with regex = False should match above\n>           cm.assert_logged(\"something\", regex=False)\n\nr2e_tests/test_1.py:134: \n_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ \n\nself = <datalad.utils.swallow_logs.<locals>.StringIOAdapter object at 0x7682bbe73ad0>\nmsg = 'something', level = None, kwargs = {'regex': False}\nassert_re_in = <function assert_re_in at 0x7682bbd54440>\nregex = '\\\\[\\\\S+\\\\] something'\n\n    def assert_logged(self, msg=None, level=None, **kwargs):\n        \"\"\"Provide assertion on either a msg was logged at a given level\n    \n        If neither `msg` nor `level` provided, checks if anything was logged\n        at all.\n    \n        Parameters\n        ----------\n        msg: str, optional\n          Message (as a regular expression) to be searched.\n          If no msg provided, checks if anything was logged at a given level.\n        level: str, optional\n          String representing the level to be logged\n        **kwargs: str, optional\n          Passed to `assert_re_in`\n        \"\"\"\n        from datalad.tests.utils import assert_re_in\n        regex = '\\[%s\\] ' % level if level else \"\\[\\S+\\] \"\n        if msg:\n            regex += msg\n    \n        if regex:\n>           assert_re_in(regex, self.out, **kwargs)\nE           TypeError: assert_re_in() got multiple values for argument 'regex'\n\ndatalad/utils.py:707: TypeError\n------------------------------ Captured log call -------------------------------\nINFO     datalad.tests:test_1.py:128 something\n_______________________________ test_find_files ________________________________\n\n    def test_find_files():\n        tests_dir = dirname(__file__)\n        proj_dir = normpath(opj(dirname(__file__), pardir))\n    \n        ff = find_files('.*', proj_dir)\n        ok_generator(ff)\n        files = list(ff)\n        assert(len(files) > 10)  # we have more than 10 test files here\n>       assert_in(opj(tests_dir, 'test_utils.py'), files)\n\nr2e_tests/test_1.py:331: \n_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ \n../../../../.local/share/uv/python/cpython-3.7.9-linux-x86_64-gnu/lib/python3.7/unittest/case.py:1119: in assertIn\n    self.fail(self._formatMessage(msg, standardMsg))\n_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ \n\nself = <nose.tools.trivial.Dummy testMethod=nop>\nmsg = \"'/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_ut.../buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/ci/prep-travis-forssh.sh']\"\n\n    def fail(self, msg=None):\n        \"\"\"Fail immediately, with the given message.\"\"\"\n>       raise self.failureException(msg)\nE       AssertionError: '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/r2e_tests/test_utils.py' not found in ['/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/run_tests.sh', 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'/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/install.sh', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/COPYING', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/Gruntfile.js', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/README.md', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/Makefile', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/setup.py', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/.gitignore', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/setup_support.py', 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'/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/testing/conf/apache-ssh-supervisor.conf', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/testing/conf/etc/apt/apt.conf.d/99apt-cacher', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/ci/prep-travis-forssh-sudo.sh', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/ci/gpg-90F7E9EB.pub', '/home/gcpuser/buckets/local_repoeval_bucket/repos/datalad_a08c7915c33980f3bf3f796f9315490dc67425c5/tools/ci/prep-travis-forssh.sh']\n\n../../../../.local/share/uv/python/cpython-3.7.9-linux-x86_64-gnu/lib/python3.7/unittest/case.py:693: AssertionError\n==================================== PASSES ====================================\n=========================== short test summary info ============================\nPASSED r2e_tests/test_1.py::test_get_func_kwargs_doc\nPASSED r2e_tests/test_1.py::test_swallow_outputs\nPASSED r2e_tests/test_1.py::test_md5sum\nPASSED r2e_tests/test_1.py::test_updated\nPASSED r2e_tests/test_1.py::test_getpwd_basic\nPASSED r2e_tests/test_1.py::test_auto_repr\nPASSED r2e_tests/test_1.py::test_assure_list_from_str\nPASSED r2e_tests/test_1.py::test_assure_dict_from_str\nPASSED r2e_tests/test_1.py::test_any_re_search\nPASSED r2e_tests/test_1.py::test_not_supported_on_windows\nPASSED r2e_tests/test_1.py::test_file_basename\nPASSED r2e_tests/test_1.py::test_expandpath\nPASSED r2e_tests/test_1.py::test_is_explicit_path\nPASSED r2e_tests/test_1.py::test_make_tempfile\nPASSED r2e_tests/test_1.py::test_unique\nPASSED r2e_tests/test_1.py::test_path_\nPASSED r2e_tests/test_1.py::test_get_timestamp_suffix\nSKIPPED [1] .venv/lib/python3.7/site-packages/_pytest/unittest.py:371: TODO\nSKIPPED [1] .venv/lib/python3.7/site-packages/_pytest/unittest.py:371: Module line_profiler fails to load: No module named 'line_profiler' [utils.py:skip_if_no_module:66]\nXFAIL r2e_tests/test_1.py::test_setup_exceptionhook - reason: [NOTRUN] yield tests were removed in pytest 4.0 - test_setup_exceptionhook will be ignored\nERROR r2e_tests/test_1.py::test_rotree\nERROR r2e_tests/test_1.py::test_swallow_logs\nERROR r2e_tests/test_1.py::test_md5sum_archive\nERROR r2e_tests/test_1.py::test_getpwd_symlink\nERROR r2e_tests/test_1.py::test_find_files_exclude_vcs\nERROR r2e_tests/test_1.py::test_knows_annex\nFAILED r2e_tests/test_1.py::test_swallow_logs_assert - TypeError: assert_re_i...\nFAILED r2e_tests/test_1.py::test_find_files - AssertionError: '/home/gcpuser/...\n========= 2 failed, 17 passed, 2 skipped, 1 xfailed, 6 errors in 1.69s =========\n",
    "old_commit_res_stderr": ""
}
datalad/tests/test_utils.py datalad/utils.py
We are currently solving the following issue within our repository. Here is the issue text:
--- BEGIN ISSUE ---
[ISSUE]
**Title:** Using `assert_logged` with `regex=False` Raises TypeError

**Description:**
When attempting to verify logged messages without using regular expressions, passing `regex=False` to the `assert_logged` method results in a `TypeError`. This prevents developers from asserting log messages using exact string matches.

**Example Code:**
```python
import logging
from datalad.utils import swallow_logs

def test_log_assertion():
    logger = logging.getLogger('datalad.tests')
    with swallow_logs(new_level='INFO') as cm:
        logger.info('something happened')
        # Attempting to assert logged message without regex
        cm.assert_logged('something happened', regex=False)
```

**Expected Behavior:**
The log message `'something happened'` should be successfully found in the captured logs using a literal string match without raising any errors.

**Actual Behavior:**
A `TypeError` is raised with the message:
```
TypeError: assert_re_in() got multiple values for argument 'regex'
```
This error occurs because the `assert_logged` method incorrectly handles the `regex` parameter when set to `False`.

[/ISSUE]
--- END ISSUE ---

Below are some code segments, each from a relevant file. One or more of these files may contain bugs.

--- BEGIN FILE ---
```
### datalad/utils.py
# emacs: -*- mode: python; py-indent-offset: 4; tab-width: 4; indent-tabs-mode: nil -*-
# ex: set sts=4 ts=4 sw=4 noet:
# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##
#
#   See COPYING file distributed along with the datalad package for the
#   copyright and license terms.
#
# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##

import collections
import re
import six.moves.builtins as __builtin__
import time

from os.path import curdir, basename, exists, realpath, islink, join as opj, isabs, normpath, expandvars, expanduser, abspath
from os.path import isdir
from six.moves.urllib.parse import quote as urlquote, unquote as urlunquote, urlsplit
from six import text_type, binary_type

import logging
import shutil
import stat
import os
import sys
import tempfile
import platform
import gc
import glob

from functools import wraps
from time import sleep
from inspect import getargspec
# from datalad.dochelpers import get_docstring_split
from datalad.consts import TIMESTAMP_FMT

lgr = logging.getLogger("datalad.utils")

lgr.log(5, "Importing datalad.utils")
#
# Some useful variables
#
_platform_system = platform.system().lower()
on_windows = _platform_system == 'windows'
on_osx = _platform_system == 'darwin'
on_linux = _platform_system == 'linux'
try:
    linux_distribution = platform.linux_distribution()
    on_debian_wheezy = on_linux \
                       and linux_distribution[0] == 'debian' \
                       and linux_distribution[1].startswith('7.')
except:  # pragma: no cover
    on_debian_wheezy = False

#
# Little helpers
#


def get_func_kwargs_doc(func):
    """ Provides args for a function
    
    Parameters
    ----------
    func: str
      name of the function from which args are being requested

    Returns
    -------
    list
      of the args that a function takes in
    """
    return getargspec(func)[0]

    # TODO: format error message with descriptions of args
    # return [repr(dict(get_docstring_split(func)[1]).get(x)) for x in getargspec(func)[0]]


def assure_tuple_or_list(obj):
    """Given an object, wrap into a tuple if not list or tuple
    """
    if isinstance(obj, list) or isinstance(obj, tuple):
        return obj
    return (obj,)


def any_re_search(regexes, value):
    """Return if any of regexes (list or str) searches succesfully for value"""
    for regex in assure_tuple_or_list(regexes):
        if re.search(regex, value):
            return True
    return False


def not_supported_on_windows(msg=None):
    """A little helper to be invoked to consistently fail whenever functionality is
    not supported (yet) on Windows
    """
    if on_windows:
        raise NotImplementedError("This functionality is not yet implemented for Windows OS"
                                  + (": %s" % msg if msg else ""))


def shortened_repr(value, l=30):
    try:
        if hasattr(value, '__repr__') and (value.__repr__ is not object.__repr__):
            value_repr = repr(value)
            if not value_repr.startswith('<') and len(value_repr) > l:
                value_repr = "<<%s...>>" % (value_repr[:l-8])
            elif value_repr.startswith('<') and value_repr.endswith('>') and ' object at 0x':
                raise ValueError("I hate those useless long reprs")
        else:
            raise ValueError("gimme class")
    except Exception as e:
        value_repr = "<%s>" % value.__class__.__name__.split('.')[-1]
    return value_repr


def __auto_repr__(obj):
    attr_names = tuple()
    if hasattr(obj, '__dict__'):
        attr_names += tuple(obj.__dict__.keys())
    if hasattr(obj, '__slots__'):
        attr_names += tuple(obj.__slots__)

    items = []
    for attr in sorted(set(attr_names)):
        if attr.startswith('_'):
            continue
        value = getattr(obj, attr)
        # TODO:  should we add this feature to minimize some talktative reprs
        # such as of URL?
        #if value is None:
        #    continue
        items.append("%s=%s" % (attr, shortened_repr(value)))

    return "%s(%s)" % (obj.__class__.__name__, ', '.join(items))

def auto_repr(cls):
    """Decorator for a class to assign it an automagic quick and dirty __repr__

    It uses public class attributes to prepare repr of a class

    Original idea: http://stackoverflow.com/a/27799004/1265472
    """

    cls.__repr__ = __auto_repr__
    return cls

def is_interactive():
    """Return True if all in/outs are tty"""
    # TODO: check on windows if hasattr check would work correctly and add value:
    #
    return sys.stdin.isatty() and sys.stdout.isatty() and sys.stderr.isatty()


import hashlib


def md5sum(filename):
    with open(filename, 'rb') as f:
        return hashlib.md5(f.read()).hexdigest()


def sorted_files(dout):
    """Return a (sorted) list of files under dout
    """
    return sorted(sum([[opj(r, f)[len(dout)+1:] for f in files]
                       for r,d,files in os.walk(dout)
                       if not '.git' in r], []))

from os.path import sep as dirsep
_VCS_REGEX = '%s\.(?:git|gitattributes|svn|bzr|hg)(?:%s|$)' % (dirsep, dirsep)
_DATALAD_REGEX = '%s\.(?:datalad)(?:%s|$)' % (dirsep, dirsep)


def find_files(regex, topdir=curdir, exclude=None, exclude_vcs=True, exclude_datalad=False, dirs=False):
    """Generator to find files matching regex

    Parameters
    ----------
    regex: basestring
    exclude: basestring, optional
      Matches to exclude
    exclude_vcs:
      If True, excludes commonly known VCS subdirectories.  If string, used
      as regex to exclude those files (regex: `%r`)
    exclude_datalad:
      If True, excludes files known to be datalad meta-data files (e.g. under
      .datalad/ subdirectory) (regex: `%r`)
    topdir: basestring, optional
      Directory where to search
    dirs: bool, optional
      Either to match directories as well as files
    """

    for dirpath, dirnames, filenames in os.walk(topdir):
        names = (dirnames + filenames) if dirs else filenames
        # TODO: might want to uniformize on windows to use '/'
        paths = (opj(dirpath, name) for name in names)
        for path in filter(re.compile(regex).search, paths):
            path = path.rstrip(dirsep)
            if exclude and re.search(exclude, path):
                continue
            if exclude_vcs and re.search(_VCS_REGEX, path):
                continue
            if exclude_datalad and re.search(_DATALAD_REGEX, path):
                continue
            yield path
find_files.__doc__ %= (_VCS_REGEX, _DATALAD_REGEX)


def expandpath(path, force_absolute=True):
    """Expand all variables and user handles in a path.

    By default return an absolute path
    """
    path = expandvars(expanduser(path))
    if force_absolute:
        path = abspath(path)
    return path


def is_explicit_path(path):
    """Return whether a path explicitly points to a location

    Any absolute path, or relative path starting with either '../' or
    './' is assumed to indicate a location on the filesystem. Any other
    path format is not considered explicit."""
    path = expandpath(path, force_absolute=False)
    return isabs(path) \
        or path.startswith(os.curdir + os.sep) \
        or path.startswith(os.pardir + os.sep)

def rotree(path, ro=True, chmod_files=True):
    """To make tree read-only or writable

    Parameters
    ----------
    path : string
      Path to the tree/directory to chmod
    ro : bool, optional
      Either to make it R/O (default) or RW
    chmod_files : bool, optional
      Either to operate also on files (not just directories)
    """
    if ro:
        chmod = lambda f: os.chmod(f, os.stat(f).st_mode & ~stat.S_IWRITE)
    else:
        chmod = lambda f: os.chmod(f, os.stat(f).st_mode | stat.S_IWRITE | stat.S_IREAD)

    for root, dirs, files in os.walk(path, followlinks=False):
        if chmod_files:
            for f in files:
                fullf = opj(root, f)
                # might be the "broken" symlink which would fail to stat etc
                if exists(fullf):
                    chmod(fullf)
        chmod(root)


def rmtree(path, chmod_files='auto', *args, **kwargs):
    """To remove git-annex .git it is needed to make all files and directories writable again first

    Parameters
    ----------
    chmod_files : string or bool, optional
       Either to make files writable also before removal.  Usually it is just
       a matter of directories to have write permissions.
       If 'auto' it would chmod files on windows by default
    `*args` :
    `**kwargs` :
       Passed into shutil.rmtree call
    """
    # Give W permissions back only to directories, no need to bother with files
    if chmod_files == 'auto':
        chmod_files = on_windows

    if not os.path.islink(path):
        rotree(path, ro=False, chmod_files=chmod_files)
        shutil.rmtree(path, *args, **kwargs)
    else:
        # just remove the symlink
        os.unlink(path)


def rmtemp(f, *args, **kwargs):
    """Wrapper to centralize removing of temp files so we could keep them around

    It will not remove the temporary file/directory if DATALAD_TESTS_KEEPTEMP
    environment variable is defined
    """
    if not os.environ.get('DATALAD_TESTS_KEEPTEMP'):
        if not os.path.lexists(f):
            lgr.debug("Path %s does not exist, so can't be removed" % f)
            return
        lgr.log(5, "Removing temp file: %s" % f)
        # Can also be a directory
        if os.path.isdir(f):
            rmtree(f, *args, **kwargs)
        else:
            for i in range(10):
                try:
                    os.unlink(f)
                except OSError as e:
                    if i < 9:
                        sleep(0.1)
                        continue
                    else:
                        raise
                break
    else:
        lgr.info("Keeping temp file: %s" % f)


def file_basename(name, return_ext=False):
    """
    Strips up to 2 extensions of length up to 4 characters and starting with alpha
    not a digit, so we could get rid of .tar.gz etc
    """
    bname = basename(name)
    fbname = re.sub('(\.[a-zA-Z_]\S{1,4}){0,2}$', '', bname)
    if return_ext:
        return fbname, bname[len(fbname)+1:]
    else:
        return fbname


def escape_filename(filename):
    """Surround filename in "" and escape " in the filename
    """
    filename = filename.replace('"', r'\"').replace('`', r'\`')
    filename = '"%s"' % filename
    return filename


def encode_filename(filename):
    """Encode unicode filename
    """
    if isinstance(filename, text_type):
        return filename.encode(sys.getfilesystemencoding())
    else:
        return filename

if on_windows:
    def lmtime(filepath, mtime):
        """Set mtime for files.  On Windows a merely adapter to os.utime
        """
        os.utime(filepath, (time.time(), mtime))
else:
    def lmtime(filepath, mtime):
        """Set mtime for files, while not de-referencing symlinks.

        To overcome absence of os.lutime

        Works only on linux and OSX ATM
        """
        from .cmd import Runner
        # convert mtime to format touch understands [[CC]YY]MMDDhhmm[.SS]
        smtime = time.strftime("%Y%m%d%H%M.%S", time.localtime(mtime))
        lgr.log(3, "Setting mtime for %s to %s == %s", filepath, mtime, smtime)
        Runner().run(['touch', '-h', '-t', '%s' % smtime, filepath])
        rfilepath = realpath(filepath)
        if islink(filepath) and exists(rfilepath):
            # trust noone - adjust also of the target file
            # since it seemed like downloading under OSX (was it using curl?)
            # didn't bother with timestamps
            lgr.log(3, "File is a symlink to %s Setting mtime for it to %s",
                    rfilepath, mtime)
            os.utime(rfilepath, (time.time(), mtime))
        # doesn't work on OSX
        # Runner().run(['touch', '-h', '-d', '@%s' % mtime, filepath])


def assure_list(s):
    """Given not a list, would place it into a list. If None - empty list is returned

    Parameters
    ----------
    s: list or anything
    """

    if isinstance(s, list):
        return s
    elif isinstance(s, tuple):
        return list(s)
    elif s is None:
        return []
    else:
        return [s]


def assure_list_from_str(s, sep='\n'):
    """Given a multiline string convert it to a list of return None if empty

    Parameters
    ----------
    s: str or list
    """

    if not s:
        return None

    if isinstance(s, list):
        return s
    return s.split(sep)


def assure_dict_from_str(s, **kwargs):
    """Given a multiline string with key=value items convert it to a dictionary

    Parameters
    ----------
    s: str or dict

    Returns None if input s is empty
    """

    if not s:
        return None

    if isinstance(s, dict):
        return s

    out = {}
    for value_str in assure_list_from_str(s, **kwargs):
        if '=' not in value_str:
            raise ValueError("{} is not in key=value format".format(repr(value_str)))
        k, v = value_str.split('=', 1)
        if k in out:
            err  = "key {} was already defined in {}, but new value {} was provided".format(k, out, v)
            raise ValueError(err)
        out[k] = v
    return out


def unique(seq, key=None):
    """Given a sequence return a list only with unique elements while maintaining order

    This is the fastest solution.  See
    https://www.peterbe.com/plog/uniqifiers-benchmark
    and
    http://stackoverflow.com/a/480227/1265472
    for more information.
    Enhancement -- added ability to compare for uniqueness using a key function

    Parameters
    ----------
    seq:
      Sequence to analyze
    key: callable, optional
      Function to call on each element so we could decide not on a full
      element, but on its member etc
    """
    seen = set()
    seen_add = seen.add
    if not key:
        return [x for x in seq if not (x in seen or seen_add(x))]
    else:
        # OPT: could be optimized, since key is called twice, but for our cases
        # should be just as fine
        return [x for x in seq if not (key(x) in seen or seen_add(key(x)))]

#
# Decorators
#

# Borrowed from pandas
# Copyright: 2011-2014, Lambda Foundry, Inc. and PyData Development Team
# Licese: BSD-3
def optional_args(decorator):
    """allows a decorator to take optional positional and keyword arguments.
        Assumes that taking a single, callable, positional argument means that
        it is decorating a function, i.e. something like this::

            @my_decorator
            def function(): pass

        Calls decorator with decorator(f, `*args`, `**kwargs`)"""

    @wraps(decorator)
    def wrapper(*args, **kwargs):
        def dec(f):
            return decorator(f, *args, **kwargs)

        is_decorating = not kwargs and len(args) == 1 and isinstance(args[0], collections.Callable)
        if is_decorating:
            f = args[0]
            args = []
            return dec(f)
        else:
            return dec

    return wrapper


# TODO: just provide decorators for tempfile.mk* functions. This is ugly!
def get_tempfile_kwargs(tkwargs={}, prefix="", wrapped=None):
    """Updates kwargs to be passed to tempfile. calls depending on env vars
    """
    # operate on a copy of tkwargs to avoid any side-effects
    tkwargs_ = tkwargs.copy()

    # TODO: don't remember why I had this one originally
    # if len(targs)<2 and \
    if 'prefix' not in tkwargs_:
        tkwargs_['prefix'] = '_'.join(
            ['datalad_temp'] +
            ([prefix] if prefix else []) +
            ([''] if (on_windows or not wrapped)
                  else [wrapped.__name__]))

    directory = os.environ.get('DATALAD_TESTS_TEMPDIR')
    if directory and 'dir' not in tkwargs_:
        tkwargs_['dir'] = directory

    return tkwargs_

@optional_args
def line_profile(func):
    """Q&D helper to line profile the function and spit out stats
    """
    import line_profiler
    prof = line_profiler.LineProfiler()

    @wraps(func)
    def newfunc(*args, **kwargs):
        try:
            pfunc = prof(func)
            return pfunc(*args, **kwargs)
        finally:
            prof.print_stats()
    return newfunc

#
# Context Managers
#

from contextlib import contextmanager

@contextmanager
def swallow_outputs():
    """Context manager to help consuming both stdout and stderr, and print()

    stdout is available as cm.out and stderr as cm.err whenever cm is the
    yielded context manager.
    Internally uses temporary files to guarantee absent side-effects of swallowing
    into StringIO which lacks .fileno.

    print mocking is necessary for some uses where sys.stdout was already bound
    to original sys.stdout, thus mocking it later had no effect. Overriding
    print function had desired effect
    """

    debugout = sys.stdout
    class StringIOAdapter(object):
        """Little adapter to help getting out/err values
        """
        def __init__(self):
            kw = get_tempfile_kwargs({}, prefix="outputs")

            self._out = open(tempfile.mktemp(**kw), 'w')
            self._err = open(tempfile.mktemp(**kw), 'w')

        def _read(self, h):
            with open(h.name) as f:
                return f.read()

        @property
        def out(self):
            self._out.flush()
            return self._read(self._out)

        @property
        def err(self):
            self._err.flush()
            return self._read(self._err)

        @property
        def handles(self):
            return self._out, self._err

        def cleanup(self):
            self._out.close()
            self._err.close()
            out_name = self._out.name
            err_name = self._err.name
            del self._out
            del self._err
            gc.collect()
            rmtemp(out_name)
            rmtemp(err_name)



    def fake_print(*args, **kwargs):
        sep = kwargs.pop('sep', ' ')
        end = kwargs.pop('end', '\n')
        file = kwargs.pop('file', sys.stdout)

        if file in (oldout, olderr, sys.stdout, sys.stderr):
            # we mock
            sys.stdout.write(sep.join(args) + end)
        else:
            # must be some other file one -- leave it alone
            oldprint(*args, sep=sep, end=end, file=file)

    from .ui import ui
    # preserve -- they could have been mocked already
    oldprint = getattr(__builtin__, 'print')
    oldout, olderr = sys.stdout, sys.stderr
    olduiout = ui.out
    adapter = StringIOAdapter()

    try:
        sys.stdout, sys.stderr = adapter.handles
        ui.out = adapter.handles[0]
        setattr(__builtin__, 'print', fake_print)

        yield adapter
    finally:
        sys.stdout, sys.stderr, ui.out = oldout, olderr, olduiout
        setattr(__builtin__, 'print',  oldprint)
        adapter.cleanup()


@contextmanager
def swallow_logs(new_level=None, file_=None):
    """Context manager to consume all logs.

    """
    lgr = logging.getLogger("datalad")

    # Keep old settings
    old_level = lgr.level
    old_handlers = lgr.handlers

    # Let's log everything into a string
    # TODO: generalize with the one for swallow_outputs
    class StringIOAdapter(object):
        """Little adapter to help getting out values

        And to stay consistent with how swallow_outputs behaves
        """
        def __init__(self):
            if file_ is None:
                kw = get_tempfile_kwargs({}, prefix="logs")
                out_file = tempfile.mktemp(**kw)
            else:
                out_file = file_
            # PY3 requires clearly one or another.  race condition possible
            self._out = open(out_file, 'a')
            self._final_out = None

        def _read(self, h):
            with open(h.name) as f:
                return f.read()

        @property
        def out(self):
            if self._final_out is not None:
                # we closed and cleaned up already
                return self._final_out
            else:
                self._out.flush()
                return self._read(self._out)

        @property
        def lines(self):
            return self.out.split('\n')

        @property
        def handle(self):
            return self._out

        def cleanup(self):
            # store for access while object exists
            self._final_out = self.out
            self._out.close()
            out_name = self._out.name
            del self._out
            gc.collect()
            if not file_:
                rmtemp(out_name)

        def assert_logged(self, msg=None, level=None, **kwargs):
            """Provide assertion on either a msg was logged at a given level

            If neither `msg` nor `level` provided, checks if anything was logged
            at all.

            Parameters
            ----------
            msg: str, optional
              Message (as a regular expression) to be searched.
              If no msg provided, checks if anything was logged at a given level.
            level: str, optional
              String representing the level to be logged
            **kwargs: str, optional
              Passed to `assert_re_in`
            """
            from datalad.tests.utils import assert_re_in
            regex = '\[%s\] ' % level if level else "\[\S+\] "
            if msg:
                regex += msg

            if regex:
                assert_re_in(regex, self.out, **kwargs)
            else:
                assert not kwargs, "no kwargs to be passed anywhere"
                assert self.out, "Nothing was logged!?"


    adapter = StringIOAdapter()
    # TODO: it does store messages but without any formatting, i.e. even without
    # date/time prefix etc.  IMHO it should preserve formatting in case if file_ is
    # set
    swallow_handler = logging.StreamHandler(adapter.handle)
    # we want to log levelname so we could test against it
    swallow_handler.setFormatter(
        logging.Formatter('[%(levelname)s] %(message)s'))
    lgr.handlers = [swallow_handler]
    if old_level < logging.DEBUG:  # so if HEAVYDEBUG etc -- show them!
        lgr.handlers += old_handlers

    if isinstance(new_level, str):
        new_level = getattr(logging, new_level)

    if new_level is not None:
        lgr.setLevel(new_level)

    try:
        yield adapter
        # TODO: if file_ and there was an exception -- most probably worth logging it?
        # although ideally it should be the next log outside added to that file_ ... oh well
    finally:
        lgr.handlers, lgr.level = old_handlers, old_level
        adapter.cleanup()


#
# Additional handlers
#
_sys_excepthook = sys.excepthook  # Just in case we ever need original one
def setup_exceptionhook(ipython=False):
    """Overloads default sys.excepthook with our exceptionhook handler.

       If interactive, our exceptionhook handler will invoke
       pdb.post_mortem; if not interactive, then invokes default handler.
    """

    def _datalad_pdb_excepthook(type, value, tb):
        import traceback
        traceback.print_exception(type, value, tb)
        print()
        if is_interactive():
            import pdb
            pdb.post_mortem(tb)

    if ipython:
        from IPython.core import ultratb
        sys.excepthook = ultratb.FormattedTB(mode='Verbose',
                                             # color_scheme='Linux',
                                             call_pdb=is_interactive())
    else:
        sys.excepthook = _datalad_pdb_excepthook


def assure_dir(*args):
    """Make sure directory exists.

    Joins the list of arguments to an os-specific path to the desired
    directory and creates it, if it not exists yet.
    """
    dirname = opj(*args)
    if not exists(dirname):
        os.makedirs(dirname)
    return dirname

def updated(d, update):
    """Return a copy of the input with the 'update'

    Primarily for updating dictionaries
    """
    d = d.copy()
    d.update(update)
    return d

def getpwd():
    """Try to return a CWD without dereferencing possible symlinks

    If no PWD found in the env, output of getcwd() is returned
    """
    try:
        return os.environ['PWD']
    except KeyError:
        return os.getcwd()

class chpwd(object):
    """Wrapper around os.chdir which also adjusts environ['PWD']

    The reason is that otherwise PWD is simply inherited from the shell
    and we have no ability to assess directory path without dereferencing
    symlinks.

    If used as a context manager it allows to temporarily change directory
    to the given path
    """
    def __init__(self, path, mkdir=False, logsuffix=''):

        if path:
            pwd = getpwd()
            self._prev_pwd = pwd
        else:
            self._prev_pwd = None
            return

        if not isabs(path):
            path = normpath(opj(pwd, path))
        if not os.path.exists(path) and mkdir:
            self._mkdir = True
            os.mkdir(path)
        else:
            self._mkdir = False
        lgr.debug("chdir %r -> %r %s", self._prev_pwd, path, logsuffix)
        os.chdir(path)  # for grep people -- ok, to chdir here!
        os.environ['PWD'] = path

    def __enter__(self):
        # nothing more to do really, chdir was in the constructor
        pass

    def __exit__(self, exc_type, exc_val, exc_tb):
        if self._prev_pwd:
            # Need to use self.__class__ so this instance, if the entire
            # thing mocked during the test, still would use correct chpwd
            self.__class__(self._prev_pwd, logsuffix="(coming back)")


def knows_annex(path):
    """Returns whether at a given path there is information about an annex

    It is just a thin wrapper around GitRepo.is_with_annex() classmethod
    which also checks for `path` to exist first.

    This includes actually present annexes, but also uninitialized ones, or
    even the presence of a remote annex branch.
    """
    from os.path import exists
    if not exists(path):
        lgr.debug("No annex: test path {0} doesn't exist".format(path))
        return False
    from datalad.support.gitrepo import GitRepo
    return GitRepo(path, init=False, create=False).is_with_annex()


@contextmanager
def make_tempfile(content=None, wrapped=None, **tkwargs):
    """Helper class to provide a temporary file name and remove it at the end (context manager)

    Parameters
    ----------
    mkdir : bool, optional (default: False)
        If True, temporary directory created using tempfile.mkdtemp()
    content : str or bytes, optional
        Content to be stored in the file created
    wrapped : function, optional
        If set, function name used to prefix temporary file name
    `**tkwargs`:
        All other arguments are passed into the call to tempfile.mk{,d}temp(),
        and resultant temporary filename is passed as the first argument into
        the function t.  If no 'prefix' argument is provided, it will be
        constructed using module and function names ('.' replaced with
        '_').

    To change the used directory without providing keyword argument 'dir' set
    DATALAD_TESTS_TEMPDIR.

    Examples
    --------
        >>> from os.path import exists
        >>> from datalad.utils import make_tempfile
        >>> with make_tempfile() as fname:
        ...    k = open(fname, 'w').write('silly test')
        >>> assert not exists(fname)  # was removed

        >>> with make_tempfile(content="blah") as fname:
        ...    assert open(fname).read() == "blah"
    """

    if tkwargs.get('mkdir', None) and content is not None:
        raise ValueError("mkdir=True while providing content makes no sense")

    tkwargs_ = get_tempfile_kwargs(tkwargs, wrapped=wrapped)

    # if DATALAD_TESTS_TEMPDIR is set, use that as directory,
    # let mktemp handle it otherwise. However, an explicitly provided
    # dir=... will override this.
    mkdir = tkwargs_.pop('mkdir', False)

    filename = {False: tempfile.mktemp,
                True: tempfile.mkdtemp}[mkdir](**tkwargs_)
    filename = realpath(filename)

    if content:
        with open(filename, 'w' + ('b' if isinstance(content, binary_type) else '')) as f:
            f.write(content)

    if __debug__:
        # TODO mkdir
        lgr.debug('Created temporary thing named %s"' % filename)
    try:
        yield filename
    finally:
        # glob here for all files with the same name (-suffix)
        # would be useful whenever we requested .img filename,
        # and function creates .hdr as well
        lsuffix = len(tkwargs_.get('suffix', ''))
        filename_ = lsuffix and filename[:-lsuffix] or filename
        filenames = glob.glob(filename_ + '*')
        if len(filename_) < 3 or len(filenames) > 5:
            # For paranoid yoh who stepped into this already ones ;-)
            lgr.warning("It is unlikely that it was intended to remove all"
                        " files matching %r. Skipping" % filename_)
            return
        for f in filenames:
            try:
                rmtemp(f)
            except OSError:
                pass


def _path_(*p):
    """Given a path in POSIX" notation, regenerate one in native to the env one"""
    if on_windows:
        return opj(*map(lambda x: x.split('/'), p))
    else:
        # Assume that all others as POSIX compliant so nothing to be done
        return opj(*p)


def get_timestamp_suffix(time_=None, prefix='-'):
    """Return a time stamp (full date and time up to second)

    primarily to be used for generation of log files names
    """
    args = []
    if time_ is not None:
        if isinstance(time_, int):
            time_ = time.gmtime(time_)
        args.append(time_)
    return time.strftime(prefix + TIMESTAMP_FMT, *args)


def get_logfilename(dspath, cmd='datalad'):
    """Return a filename to use for logging under a dataset/repository

    directory would be created if doesn't exist, but dspath must exist
    and be a directory
    """
    assert(exists(dspath))
    assert(isdir(dspath))
    ds_logdir = assure_dir(dspath, '.git', 'datalad', 'logs')  # TODO: use WEB_META_LOG whenever #789 merged
    return opj(ds_logdir, 'crawl-%s.log' % get_timestamp_suffix())


lgr.log(5, "Done importing datalad.utils")

```
--- END FILE ---

Please first localize the bug based on the issue statement, and then generate *SEARCH/REPLACE* edits to fix the issue.

Every *SEARCH/REPLACE* edit must use this format:
1. The file path
2. The start of search block: <<<<<<< SEARCH
3. A contiguous chunk of lines to search for in the existing source code
4. The dividing line: =======
5. The lines to replace into the source code
6. The end of the replace block: >>>>>>> REPLACE

Here is an example:

```python
### mathweb/flask/app.py
<<<<<<< SEARCH
from flask import Flask
=======
import math
from flask import Flask
>>>>>>> REPLACE
```
</solution>

Please note that the *SEARCH/REPLACE* edit REQUIRES PROPER INDENTATION. If you would like to add the line '        print(x)', you must fully write that out, with all those spaces before the code!
Wrap each *SEARCH/REPLACE* edit in a code block as shown in the example above. If you have multiple *SEARCH/REPLACE* edits, use a separate code block for each one.
[ISSUE]
**Title:** Using `assert_logged` with `regex=False` Raises TypeError

**Description:**
When attempting to verify logged messages without using regular expressions, passing `regex=False` to the `assert_logged` method results in a `TypeError`. This prevents developers from asserting log messages using exact string matches.

**Example Code:**
```python
import logging
from datalad.utils import swallow_logs

def test_log_assertion():
    logger = logging.getLogger('datalad.tests')
    with swallow_logs(new_level='INFO') as cm:
        logger.info('something happened')
        # Attempting to assert logged message without regex
        cm.assert_logged('something happened', regex=False)
```

**Expected Behavior:**
The log message `'something happened'` should be successfully found in the captured logs using a literal string match without raising any errors.

**Actual Behavior:**
A `TypeError` is raised with the message:
```
TypeError: assert_re_in() got multiple values for argument 'regex'
```
This error occurs because the `assert_logged` method incorrectly handles the `regex` parameter when set to `False`.

[/ISSUE]
{
    "test_get_func_kwargs_doc": "PASSED",
    "test_swallow_outputs": "PASSED",
    "test_swallow_logs_assert": "PASSED",
    "test_md5sum": "PASSED",
    "test_updated": "PASSED",
    "test_getpwd_basic": "PASSED",
    "test_auto_repr": "PASSED",
    "test_assure_list_from_str": "PASSED",
    "test_assure_dict_from_str": "PASSED",
    "test_any_re_search": "PASSED",
    "test_not_supported_on_windows": "PASSED",
    "test_file_basename": "PASSED",
    "test_expandpath": "PASSED",
    "test_is_explicit_path": "PASSED",
    "test_make_tempfile": "PASSED",
    "test_unique": "PASSED",
    "test_path_": "PASSED",
    "test_get_timestamp_suffix": "PASSED",
    "test_rotree": "ERROR",
    "test_swallow_logs": "ERROR",
    "test_md5sum_archive": "ERROR",
    "test_getpwd_symlink": "ERROR",
    "test_find_files_exclude_vcs": "ERROR",
    "test_knows_annex": "ERROR",
    "test_find_files": "FAILED"
}
diff --git a/datalad/utils.py b/datalad/utils.py
index 4ae2acac1..c401e93fb 100644
--- a/datalad/utils.py
+++ b/datalad/utils.py
@@ -682,7 +682,7 @@ def swallow_logs(new_level=None, file_=None):
             if not file_:
                 rmtemp(out_name)
 
-        def assert_logged(self, msg=None, level=None, **kwargs):
+        def assert_logged(self, msg=None, level=None, regex=True, **kwargs):
             """Provide assertion on either a msg was logged at a given level
 
             If neither `msg` nor `level` provided, checks if anything was logged
@@ -691,20 +691,28 @@ def swallow_logs(new_level=None, file_=None):
             Parameters
             ----------
             msg: str, optional
-              Message (as a regular expression) to be searched.
+              Message (as a regular expression, if `regex`) to be searched.
               If no msg provided, checks if anything was logged at a given level.
             level: str, optional
               String representing the level to be logged
+            regex: bool, optional
+              If False, regular `assert_in` is used
             **kwargs: str, optional
-              Passed to `assert_re_in`
+              Passed to `assert_re_in` or `assert_in`
             """
             from datalad.tests.utils import assert_re_in
-            regex = '\[%s\] ' % level if level else "\[\S+\] "
-            if msg:
-                regex += msg
+            from datalad.tests.utils import assert_in
 
             if regex:
-                assert_re_in(regex, self.out, **kwargs)
+                match = '\[%s\] ' % level if level else "\[\S+\] "
+            else:
+                match = '[%s] ' % level if level else ''
+
+            if msg:
+                match += msg
+
+            if match:
+                (assert_re_in if regex else assert_in)(match, self.out, **kwargs)
             else:
                 assert not kwargs, "no kwargs to be passed anywhere"
                 assert self.out, "Nothing was logged!?"
 

{"datalad/utils.py": "# emacs: -*- mode: python; py-indent-offset: 4; tab-width: 4; indent-tabs-mode: nil -*-\n# ex: set sts=4 ts=4 sw=4 noet:\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n#\n#   See COPYING file distributed along with the datalad package for the\n#   copyright and license terms.\n#\n# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##\n\nimport collections\nimport re\nimport six.moves.builtins as __builtin__\nimport time\n\nfrom os.path import curdir, basename, exists, realpath, islink, join as opj, isabs, normpath, expandvars, expanduser, abspath\nfrom os.path import isdir\nfrom six.moves.urllib.parse import quote as urlquote, unquote as urlunquote, urlsplit\nfrom six import text_type, binary_type\n\nimport logging\nimport shutil\nimport stat\nimport os\nimport sys\nimport tempfile\nimport platform\nimport gc\nimport glob\n\nfrom functools import wraps\nfrom time import sleep\nfrom inspect import getargspec\n# from datalad.dochelpers import get_docstring_split\nfrom datalad.consts import TIMESTAMP_FMT\n\nlgr = logging.getLogger(\"datalad.utils\")\n\nlgr.log(5, \"Importing datalad.utils\")\n#\n# Some useful variables\n#\n_platform_system = platform.system().lower()\non_windows = _platform_system == 'windows'\non_osx = _platform_system == 'darwin'\non_linux = _platform_system == 'linux'\ntry:\n    linux_distribution = platform.linux_distribution()\n    on_debian_wheezy = on_linux \\\n                       and linux_distribution[0] == 'debian' \\\n                       and linux_distribution[1].startswith('7.')\nexcept:  # pragma: no cover\n    on_debian_wheezy = False\n\n#\n# Little helpers\n#\n\n\ndef get_func_kwargs_doc(func):\n    \"\"\" Provides args for a function\n    \n    Parameters\n    ----------\n    func: str\n      name of the function from which args are being requested\n\n    Returns\n    -------\n    list\n      of the args that a function takes in\n    \"\"\"\n    return getargspec(func)[0]\n\n    # TODO: format error message with descriptions of args\n    # return [repr(dict(get_docstring_split(func)[1]).get(x)) for x in getargspec(func)[0]]\n\n\ndef assure_tuple_or_list(obj):\n    \"\"\"Given an object, wrap into a tuple if not list or tuple\n    \"\"\"\n    if isinstance(obj, list) or isinstance(obj, tuple):\n        return obj\n    return (obj,)\n\n\ndef any_re_search(regexes, value):\n    \"\"\"Return if any of regexes (list or str) searches succesfully for value\"\"\"\n    for regex in assure_tuple_or_list(regexes):\n        if re.search(regex, value):\n            return True\n    return False\n\n\ndef not_supported_on_windows(msg=None):\n    \"\"\"A little helper to be invoked to consistently fail whenever functionality is\n    not supported (yet) on Windows\n    \"\"\"\n    if on_windows:\n        raise NotImplementedError(\"This functionality is not yet implemented for Windows OS\"\n                                  + (\": %s\" % msg if msg else \"\"))\n\n\ndef shortened_repr(value, l=30):\n    try:\n        if hasattr(value, '__repr__') and (value.__repr__ is not object.__repr__):\n            value_repr = repr(value)\n            if not value_repr.startswith('<') and len(value_repr) > l:\n                value_repr = \"<<%s...>>\" % (value_repr[:l-8])\n            elif value_repr.startswith('<') and value_repr.endswith('>') and ' object at 0x':\n                raise ValueError(\"I hate those useless long reprs\")\n        else:\n            raise ValueError(\"gimme class\")\n    except Exception as e:\n        value_repr = \"<%s>\" % value.__class__.__name__.split('.')[-1]\n    return value_repr\n\n\ndef __auto_repr__(obj):\n    attr_names = tuple()\n    if hasattr(obj, '__dict__'):\n        attr_names += tuple(obj.__dict__.keys())\n    if hasattr(obj, '__slots__'):\n        attr_names += tuple(obj.__slots__)\n\n    items = []\n    for attr in sorted(set(attr_names)):\n        if attr.startswith('_'):\n            continue\n        value = getattr(obj, attr)\n        # TODO:  should we add this feature to minimize some talktative reprs\n        # such as of URL?\n        #if value is None:\n        #    continue\n        items.append(\"%s=%s\" % (attr, shortened_repr(value)))\n\n    return \"%s(%s)\" % (obj.__class__.__name__, ', '.join(items))\n\ndef auto_repr(cls):\n    \"\"\"Decorator for a class to assign it an automagic quick and dirty __repr__\n\n    It uses public class attributes to prepare repr of a class\n\n    Original idea: http://stackoverflow.com/a/27799004/1265472\n    \"\"\"\n\n    cls.__repr__ = __auto_repr__\n    return cls\n\ndef is_interactive():\n    \"\"\"Return True if all in/outs are tty\"\"\"\n    # TODO: check on windows if hasattr check would work correctly and add value:\n    #\n    return sys.stdin.isatty() and sys.stdout.isatty() and sys.stderr.isatty()\n\n\nimport hashlib\n\n\ndef md5sum(filename):\n    with open(filename, 'rb') as f:\n        return hashlib.md5(f.read()).hexdigest()\n\n\ndef sorted_files(dout):\n    \"\"\"Return a (sorted) list of files under dout\n    \"\"\"\n    return sorted(sum([[opj(r, f)[len(dout)+1:] for f in files]\n                       for r,d,files in os.walk(dout)\n                       if not '.git' in r], []))\n\nfrom os.path import sep as dirsep\n_VCS_REGEX = '%s\\.(?:git|gitattributes|svn|bzr|hg)(?:%s|$)' % (dirsep, dirsep)\n_DATALAD_REGEX = '%s\\.(?:datalad)(?:%s|$)' % (dirsep, dirsep)\n\n\ndef find_files(regex, topdir=curdir, exclude=None, exclude_vcs=True, exclude_datalad=False, dirs=False):\n    \"\"\"Generator to find files matching regex\n\n    Parameters\n    ----------\n    regex: basestring\n    exclude: basestring, optional\n      Matches to exclude\n    exclude_vcs:\n      If True, excludes commonly known VCS subdirectories.  If string, used\n      as regex to exclude those files (regex: `%r`)\n    exclude_datalad:\n      If True, excludes files known to be datalad meta-data files (e.g. under\n      .datalad/ subdirectory) (regex: `%r`)\n    topdir: basestring, optional\n      Directory where to search\n    dirs: bool, optional\n      Either to match directories as well as files\n    \"\"\"\n\n    for dirpath, dirnames, filenames in os.walk(topdir):\n        names = (dirnames + filenames) if dirs else filenames\n        # TODO: might want to uniformize on windows to use '/'\n        paths = (opj(dirpath, name) for name in names)\n        for path in filter(re.compile(regex).search, paths):\n            path = path.rstrip(dirsep)\n            if exclude and re.search(exclude, path):\n                continue\n            if exclude_vcs and re.search(_VCS_REGEX, path):\n                continue\n            if exclude_datalad and re.search(_DATALAD_REGEX, path):\n                continue\n            yield path\nfind_files.__doc__ %= (_VCS_REGEX, _DATALAD_REGEX)\n\n\ndef expandpath(path, force_absolute=True):\n    \"\"\"Expand all variables and user handles in a path.\n\n    By default return an absolute path\n    \"\"\"\n    path = expandvars(expanduser(path))\n    if force_absolute:\n        path = abspath(path)\n    return path\n\n\ndef is_explicit_path(path):\n    \"\"\"Return whether a path explicitly points to a location\n\n    Any absolute path, or relative path starting with either '../' or\n    './' is assumed to indicate a location on the filesystem. Any other\n    path format is not considered explicit.\"\"\"\n    path = expandpath(path, force_absolute=False)\n    return isabs(path) \\\n        or path.startswith(os.curdir + os.sep) \\\n        or path.startswith(os.pardir + os.sep)\n\ndef rotree(path, ro=True, chmod_files=True):\n    \"\"\"To make tree read-only or writable\n\n    Parameters\n    ----------\n    path : string\n      Path to the tree/directory to chmod\n    ro : bool, optional\n      Either to make it R/O (default) or RW\n    chmod_files : bool, optional\n      Either to operate also on files (not just directories)\n    \"\"\"\n    if ro:\n        chmod = lambda f: os.chmod(f, os.stat(f).st_mode & ~stat.S_IWRITE)\n    else:\n        chmod = lambda f: os.chmod(f, os.stat(f).st_mode | stat.S_IWRITE | stat.S_IREAD)\n\n    for root, dirs, files in os.walk(path, followlinks=False):\n        if chmod_files:\n            for f in files:\n                fullf = opj(root, f)\n                # might be the \"broken\" symlink which would fail to stat etc\n                if exists(fullf):\n                    chmod(fullf)\n        chmod(root)\n\n\ndef rmtree(path, chmod_files='auto', *args, **kwargs):\n    \"\"\"To remove git-annex .git it is needed to make all files and directories writable again first\n\n    Parameters\n    ----------\n    chmod_files : string or bool, optional\n       Either to make files writable also before removal.  Usually it is just\n       a matter of directories to have write permissions.\n       If 'auto' it would chmod files on windows by default\n    `*args` :\n    `**kwargs` :\n       Passed into shutil.rmtree call\n    \"\"\"\n    # Give W permissions back only to directories, no need to bother with files\n    if chmod_files == 'auto':\n        chmod_files = on_windows\n\n    if not os.path.islink(path):\n        rotree(path, ro=False, chmod_files=chmod_files)\n        shutil.rmtree(path, *args, **kwargs)\n    else:\n        # just remove the symlink\n        os.unlink(path)\n\n\ndef rmtemp(f, *args, **kwargs):\n    \"\"\"Wrapper to centralize removing of temp files so we could keep them around\n\n    It will not remove the temporary file/directory if DATALAD_TESTS_KEEPTEMP\n    environment variable is defined\n    \"\"\"\n    if not os.environ.get('DATALAD_TESTS_KEEPTEMP'):\n        if not os.path.lexists(f):\n            lgr.debug(\"Path %s does not exist, so can't be removed\" % f)\n            return\n        lgr.log(5, \"Removing temp file: %s\" % f)\n        # Can also be a directory\n        if os.path.isdir(f):\n            rmtree(f, *args, **kwargs)\n        else:\n            for i in range(10):\n                try:\n                    os.unlink(f)\n                except OSError as e:\n                    if i < 9:\n                        sleep(0.1)\n                        continue\n                    else:\n                        raise\n                break\n    else:\n        lgr.info(\"Keeping temp file: %s\" % f)\n\n\ndef file_basename(name, return_ext=False):\n    \"\"\"\n    Strips up to 2 extensions of length up to 4 characters and starting with alpha\n    not a digit, so we could get rid of .tar.gz etc\n    \"\"\"\n    bname = basename(name)\n    fbname = re.sub('(\\.[a-zA-Z_]\\S{1,4}){0,2}$', '', bname)\n    if return_ext:\n        return fbname, bname[len(fbname)+1:]\n    else:\n        return fbname\n\n\ndef escape_filename(filename):\n    \"\"\"Surround filename in \"\" and escape \" in the filename\n    \"\"\"\n    filename = filename.replace('\"', r'\\\"').replace('`', r'\\`')\n    filename = '\"%s\"' % filename\n    return filename\n\n\ndef encode_filename(filename):\n    \"\"\"Encode unicode filename\n    \"\"\"\n    if isinstance(filename, text_type):\n        return filename.encode(sys.getfilesystemencoding())\n    else:\n        return filename\n\nif on_windows:\n    def lmtime(filepath, mtime):\n        \"\"\"Set mtime for files.  On Windows a merely adapter to os.utime\n        \"\"\"\n        os.utime(filepath, (time.time(), mtime))\nelse:\n    def lmtime(filepath, mtime):\n        \"\"\"Set mtime for files, while not de-referencing symlinks.\n\n        To overcome absence of os.lutime\n\n        Works only on linux and OSX ATM\n        \"\"\"\n        from .cmd import Runner\n        # convert mtime to format touch understands [[CC]YY]MMDDhhmm[.SS]\n        smtime = time.strftime(\"%Y%m%d%H%M.%S\", time.localtime(mtime))\n        lgr.log(3, \"Setting mtime for %s to %s == %s\", filepath, mtime, smtime)\n        Runner().run(['touch', '-h', '-t', '%s' % smtime, filepath])\n        rfilepath = realpath(filepath)\n        if islink(filepath) and exists(rfilepath):\n            # trust noone - adjust also of the target file\n            # since it seemed like downloading under OSX (was it using curl?)\n            # didn't bother with timestamps\n            lgr.log(3, \"File is a symlink to %s Setting mtime for it to %s\",\n                    rfilepath, mtime)\n            os.utime(rfilepath, (time.time(), mtime))\n        # doesn't work on OSX\n        # Runner().run(['touch', '-h', '-d', '@%s' % mtime, filepath])\n\n\ndef assure_list(s):\n    \"\"\"Given not a list, would place it into a list. If None - empty list is returned\n\n    Parameters\n    ----------\n    s: list or anything\n    \"\"\"\n\n    if isinstance(s, list):\n        return s\n    elif isinstance(s, tuple):\n        return list(s)\n    elif s is None:\n        return []\n    else:\n        return [s]\n\n\ndef assure_list_from_str(s, sep='\\n'):\n    \"\"\"Given a multiline string convert it to a list of return None if empty\n\n    Parameters\n    ----------\n    s: str or list\n    \"\"\"\n\n    if not s:\n        return None\n\n    if isinstance(s, list):\n        return s\n    return s.split(sep)\n\n\ndef assure_dict_from_str(s, **kwargs):\n    \"\"\"Given a multiline string with key=value items convert it to a dictionary\n\n    Parameters\n    ----------\n    s: str or dict\n\n    Returns None if input s is empty\n    \"\"\"\n\n    if not s:\n        return None\n\n    if isinstance(s, dict):\n        return s\n\n    out = {}\n    for value_str in assure_list_from_str(s, **kwargs):\n        if '=' not in value_str:\n            raise ValueError(\"{} is not in key=value format\".format(repr(value_str)))\n        k, v = value_str.split('=', 1)\n        if k in out:\n            err  = \"key {} was already defined in {}, but new value {} was provided\".format(k, out, v)\n            raise ValueError(err)\n        out[k] = v\n    return out\n\n\ndef unique(seq, key=None):\n    \"\"\"Given a sequence return a list only with unique elements while maintaining order\n\n    This is the fastest solution.  See\n    https://www.peterbe.com/plog/uniqifiers-benchmark\n    and\n    http://stackoverflow.com/a/480227/1265472\n    for more information.\n    Enhancement -- added ability to compare for uniqueness using a key function\n\n    Parameters\n    ----------\n    seq:\n      Sequence to analyze\n    key: callable, optional\n      Function to call on each element so we could decide not on a full\n      element, but on its member etc\n    \"\"\"\n    seen = set()\n    seen_add = seen.add\n    if not key:\n        return [x for x in seq if not (x in seen or seen_add(x))]\n    else:\n        # OPT: could be optimized, since key is called twice, but for our cases\n        # should be just as fine\n        return [x for x in seq if not (key(x) in seen or seen_add(key(x)))]\n\n#\n# Decorators\n#\n\n# Borrowed from pandas\n# Copyright: 2011-2014, Lambda Foundry, Inc. and PyData Development Team\n# Licese: BSD-3\ndef optional_args(decorator):\n    \"\"\"allows a decorator to take optional positional and keyword arguments.\n        Assumes that taking a single, callable, positional argument means that\n        it is decorating a function, i.e. something like this::\n\n            @my_decorator\n            def function(): pass\n\n        Calls decorator with decorator(f, `*args`, `**kwargs`)\"\"\"\n\n    @wraps(decorator)\n    def wrapper(*args, **kwargs):\n        def dec(f):\n            return decorator(f, *args, **kwargs)\n\n        is_decorating = not kwargs and len(args) == 1 and isinstance(args[0], collections.Callable)\n        if is_decorating:\n            f = args[0]\n            args = []\n            return dec(f)\n        else:\n            return dec\n\n    return wrapper\n\n\n# TODO: just provide decorators for tempfile.mk* functions. This is ugly!\ndef get_tempfile_kwargs(tkwargs={}, prefix=\"\", wrapped=None):\n    \"\"\"Updates kwargs to be passed to tempfile. calls depending on env vars\n    \"\"\"\n    # operate on a copy of tkwargs to avoid any side-effects\n    tkwargs_ = tkwargs.copy()\n\n    # TODO: don't remember why I had this one originally\n    # if len(targs)<2 and \\\n    if 'prefix' not in tkwargs_:\n        tkwargs_['prefix'] = '_'.join(\n            ['datalad_temp'] +\n            ([prefix] if prefix else []) +\n            ([''] if (on_windows or not wrapped)\n                  else [wrapped.__name__]))\n\n    directory = os.environ.get('DATALAD_TESTS_TEMPDIR')\n    if directory and 'dir' not in tkwargs_:\n        tkwargs_['dir'] = directory\n\n    return tkwargs_\n\n@optional_args\ndef line_profile(func):\n    \"\"\"Q&D helper to line profile the function and spit out stats\n    \"\"\"\n    import line_profiler\n    prof = line_profiler.LineProfiler()\n\n    @wraps(func)\n    def newfunc(*args, **kwargs):\n        try:\n            pfunc = prof(func)\n            return pfunc(*args, **kwargs)\n        finally:\n            prof.print_stats()\n    return newfunc\n\n#\n# Context Managers\n#\n\nfrom contextlib import contextmanager\n\n@contextmanager\ndef swallow_outputs():\n    \"\"\"Context manager to help consuming both stdout and stderr, and print()\n\n    stdout is available as cm.out and stderr as cm.err whenever cm is the\n    yielded context manager.\n    Internally uses temporary files to guarantee absent side-effects of swallowing\n    into StringIO which lacks .fileno.\n\n    print mocking is necessary for some uses where sys.stdout was already bound\n    to original sys.stdout, thus mocking it later had no effect. Overriding\n    print function had desired effect\n    \"\"\"\n\n    debugout = sys.stdout\n    class StringIOAdapter(object):\n        \"\"\"Little adapter to help getting out/err values\n        \"\"\"\n        def __init__(self):\n            kw = get_tempfile_kwargs({}, prefix=\"outputs\")\n\n            self._out = open(tempfile.mktemp(**kw), 'w')\n            self._err = open(tempfile.mktemp(**kw), 'w')\n\n        def _read(self, h):\n            with open(h.name) as f:\n                return f.read()\n\n        @property\n        def out(self):\n            self._out.flush()\n            return self._read(self._out)\n\n        @property\n        def err(self):\n            self._err.flush()\n            return self._read(self._err)\n\n        @property\n        def handles(self):\n            return self._out, self._err\n\n        def cleanup(self):\n            self._out.close()\n            self._err.close()\n            out_name = self._out.name\n            err_name = self._err.name\n            del self._out\n            del self._err\n            gc.collect()\n            rmtemp(out_name)\n            rmtemp(err_name)\n\n\n\n    def fake_print(*args, **kwargs):\n        sep = kwargs.pop('sep', ' ')\n        end = kwargs.pop('end', '\\n')\n        file = kwargs.pop('file', sys.stdout)\n\n        if file in (oldout, olderr, sys.stdout, sys.stderr):\n            # we mock\n            sys.stdout.write(sep.join(args) + end)\n        else:\n            # must be some other file one -- leave it alone\n            oldprint(*args, sep=sep, end=end, file=file)\n\n    from .ui import ui\n    # preserve -- they could have been mocked already\n    oldprint = getattr(__builtin__, 'print')\n    oldout, olderr = sys.stdout, sys.stderr\n    olduiout = ui.out\n    adapter = StringIOAdapter()\n\n    try:\n        sys.stdout, sys.stderr = adapter.handles\n        ui.out = adapter.handles[0]\n        setattr(__builtin__, 'print', fake_print)\n\n        yield adapter\n    finally:\n        sys.stdout, sys.stderr, ui.out = oldout, olderr, olduiout\n        setattr(__builtin__, 'print',  oldprint)\n        adapter.cleanup()\n\n\n@contextmanager\ndef swallow_logs(new_level=None, file_=None):\n    \"\"\"Context manager to consume all logs.\n\n    \"\"\"\n    lgr = logging.getLogger(\"datalad\")\n\n    # Keep old settings\n    old_level = lgr.level\n    old_handlers = lgr.handlers\n\n    # Let's log everything into a string\n    # TODO: generalize with the one for swallow_outputs\n    class StringIOAdapter(object):\n        \"\"\"Little adapter to help getting out values\n\n        And to stay consistent with how swallow_outputs behaves\n        \"\"\"\n        def __init__(self):\n            if file_ is None:\n                kw = get_tempfile_kwargs({}, prefix=\"logs\")\n                out_file = tempfile.mktemp(**kw)\n            else:\n                out_file = file_\n            # PY3 requires clearly one or another.  race condition possible\n            self._out = open(out_file, 'a')\n            self._final_out = None\n\n        def _read(self, h):\n            with open(h.name) as f:\n                return f.read()\n\n        @property\n        def out(self):\n            if self._final_out is not None:\n                # we closed and cleaned up already\n                return self._final_out\n            else:\n                self._out.flush()\n                return self._read(self._out)\n\n        @property\n        def lines(self):\n            return self.out.split('\\n')\n\n        @property\n        def handle(self):\n            return self._out\n\n        def cleanup(self):\n            # store for access while object exists\n            self._final_out = self.out\n            self._out.close()\n            out_name = self._out.name\n            del self._out\n            gc.collect()\n            if not file_:\n                rmtemp(out_name)\n\n        def assert_logged(self, msg=None, level=None, **kwargs):\n            \"\"\"Provide assertion on either a msg was logged at a given level\n\n            If neither `msg` nor `level` provided, checks if anything was logged\n            at all.\n\n            Parameters\n            ----------\n            msg: str, optional\n              Message (as a regular expression) to be searched.\n              If no msg provided, checks if anything was logged at a given level.\n            level: str, optional\n              String representing the level to be logged\n            **kwargs: str, optional\n              Passed to `assert_re_in`\n            \"\"\"\n            from datalad.tests.utils import assert_re_in\n            regex = '\\[%s\\] ' % level if level else \"\\[\\S+\\] \"\n            if msg:\n                regex += msg\n\n            if regex:\n                assert_re_in(regex, self.out, **kwargs)\n            else:\n                assert not kwargs, \"no kwargs to be passed anywhere\"\n                assert self.out, \"Nothing was logged!?\"\n\n\n    adapter = StringIOAdapter()\n    # TODO: it does store messages but without any formatting, i.e. even without\n    # date/time prefix etc.  IMHO it should preserve formatting in case if file_ is\n    # set\n    swallow_handler = logging.StreamHandler(adapter.handle)\n    # we want to log levelname so we could test against it\n    swallow_handler.setFormatter(\n        logging.Formatter('[%(levelname)s] %(message)s'))\n    lgr.handlers = [swallow_handler]\n    if old_level < logging.DEBUG:  # so if HEAVYDEBUG etc -- show them!\n        lgr.handlers += old_handlers\n\n    if isinstance(new_level, str):\n        new_level = getattr(logging, new_level)\n\n    if new_level is not None:\n        lgr.setLevel(new_level)\n\n    try:\n        yield adapter\n        # TODO: if file_ and there was an exception -- most probably worth logging it?\n        # although ideally it should be the next log outside added to that file_ ... oh well\n    finally:\n        lgr.handlers, lgr.level = old_handlers, old_level\n        adapter.cleanup()\n\n\n#\n# Additional handlers\n#\n_sys_excepthook = sys.excepthook  # Just in case we ever need original one\ndef setup_exceptionhook(ipython=False):\n    \"\"\"Overloads default sys.excepthook with our exceptionhook handler.\n\n       If interactive, our exceptionhook handler will invoke\n       pdb.post_mortem; if not interactive, then invokes default handler.\n    \"\"\"\n\n    def _datalad_pdb_excepthook(type, value, tb):\n        import traceback\n        traceback.print_exception(type, value, tb)\n        print()\n        if is_interactive():\n            import pdb\n            pdb.post_mortem(tb)\n\n    if ipython:\n        from IPython.core import ultratb\n        sys.excepthook = ultratb.FormattedTB(mode='Verbose',\n                                             # color_scheme='Linux',\n                                             call_pdb=is_interactive())\n    else:\n        sys.excepthook = _datalad_pdb_excepthook\n\n\ndef assure_dir(*args):\n    \"\"\"Make sure directory exists.\n\n    Joins the list of arguments to an os-specific path to the desired\n    directory and creates it, if it not exists yet.\n    \"\"\"\n    dirname = opj(*args)\n    if not exists(dirname):\n        os.makedirs(dirname)\n    return dirname\n\ndef updated(d, update):\n    \"\"\"Return a copy of the input with the 'update'\n\n    Primarily for updating dictionaries\n    \"\"\"\n    d = d.copy()\n    d.update(update)\n    return d\n\ndef getpwd():\n    \"\"\"Try to return a CWD without dereferencing possible symlinks\n\n    If no PWD found in the env, output of getcwd() is returned\n    \"\"\"\n    try:\n        return os.environ['PWD']\n    except KeyError:\n        return os.getcwd()\n\nclass chpwd(object):\n    \"\"\"Wrapper around os.chdir which also adjusts environ['PWD']\n\n    The reason is that otherwise PWD is simply inherited from the shell\n    and we have no ability to assess directory path without dereferencing\n    symlinks.\n\n    If used as a context manager it allows to temporarily change directory\n    to the given path\n    \"\"\"\n    def __init__(self, path, mkdir=False, logsuffix=''):\n\n        if path:\n            pwd = getpwd()\n            self._prev_pwd = pwd\n        else:\n            self._prev_pwd = None\n            return\n\n        if not isabs(path):\n            path = normpath(opj(pwd, path))\n        if not os.path.exists(path) and mkdir:\n            self._mkdir = True\n            os.mkdir(path)\n        else:\n            self._mkdir = False\n        lgr.debug(\"chdir %r -> %r %s\", self._prev_pwd, path, logsuffix)\n        os.chdir(path)  # for grep people -- ok, to chdir here!\n        os.environ['PWD'] = path\n\n    def __enter__(self):\n        # nothing more to do really, chdir was in the constructor\n        pass\n\n    def __exit__(self, exc_type, exc_val, exc_tb):\n        if self._prev_pwd:\n            # Need to use self.__class__ so this instance, if the entire\n            # thing mocked during the test, still would use correct chpwd\n            self.__class__(self._prev_pwd, logsuffix=\"(coming back)\")\n\n\ndef knows_annex(path):\n    \"\"\"Returns whether at a given path there is information about an annex\n\n    It is just a thin wrapper around GitRepo.is_with_annex() classmethod\n    which also checks for `path` to exist first.\n\n    This includes actually present annexes, but also uninitialized ones, or\n    even the presence of a remote annex branch.\n    \"\"\"\n    from os.path import exists\n    if not exists(path):\n        lgr.debug(\"No annex: test path {0} doesn't exist\".format(path))\n        return False\n    from datalad.support.gitrepo import GitRepo\n    return GitRepo(path, init=False, create=False).is_with_annex()\n\n\n@contextmanager\ndef make_tempfile(content=None, wrapped=None, **tkwargs):\n    \"\"\"Helper class to provide a temporary file name and remove it at the end (context manager)\n\n    Parameters\n    ----------\n    mkdir : bool, optional (default: False)\n        If True, temporary directory created using tempfile.mkdtemp()\n    content : str or bytes, optional\n        Content to be stored in the file created\n    wrapped : function, optional\n        If set, function name used to prefix temporary file name\n    `**tkwargs`:\n        All other arguments are passed into the call to tempfile.mk{,d}temp(),\n        and resultant temporary filename is passed as the first argument into\n        the function t.  If no 'prefix' argument is provided, it will be\n        constructed using module and function names ('.' replaced with\n        '_').\n\n    To change the used directory without providing keyword argument 'dir' set\n    DATALAD_TESTS_TEMPDIR.\n\n    Examples\n    --------\n        >>> from os.path import exists\n        >>> from datalad.utils import make_tempfile\n        >>> with make_tempfile() as fname:\n        ...    k = open(fname, 'w').write('silly test')\n        >>> assert not exists(fname)  # was removed\n\n        >>> with make_tempfile(content=\"blah\") as fname:\n        ...    assert open(fname).read() == \"blah\"\n    \"\"\"\n\n    if tkwargs.get('mkdir', None) and content is not None:\n        raise ValueError(\"mkdir=True while providing content makes no sense\")\n\n    tkwargs_ = get_tempfile_kwargs(tkwargs, wrapped=wrapped)\n\n    # if DATALAD_TESTS_TEMPDIR is set, use that as directory,\n    # let mktemp handle it otherwise. However, an explicitly provided\n    # dir=... will override this.\n    mkdir = tkwargs_.pop('mkdir', False)\n\n    filename = {False: tempfile.mktemp,\n                True: tempfile.mkdtemp}[mkdir](**tkwargs_)\n    filename = realpath(filename)\n\n    if content:\n        with open(filename, 'w' + ('b' if isinstance(content, binary_type) else '')) as f:\n            f.write(content)\n\n    if __debug__:\n        # TODO mkdir\n        lgr.debug('Created temporary thing named %s\"' % filename)\n    try:\n        yield filename\n    finally:\n        # glob here for all files with the same name (-suffix)\n        # would be useful whenever we requested .img filename,\n        # and function creates .hdr as well\n        lsuffix = len(tkwargs_.get('suffix', ''))\n        filename_ = lsuffix and filename[:-lsuffix] or filename\n        filenames = glob.glob(filename_ + '*')\n        if len(filename_) < 3 or len(filenames) > 5:\n            # For paranoid yoh who stepped into this already ones ;-)\n            lgr.warning(\"It is unlikely that it was intended to remove all\"\n                        \" files matching %r. Skipping\" % filename_)\n            return\n        for f in filenames:\n            try:\n                rmtemp(f)\n            except OSError:\n                pass\n\n\ndef _path_(*p):\n    \"\"\"Given a path in POSIX\" notation, regenerate one in native to the env one\"\"\"\n    if on_windows:\n        return opj(*map(lambda x: x.split('/'), p))\n    else:\n        # Assume that all others as POSIX compliant so nothing to be done\n        return opj(*p)\n\n\ndef get_timestamp_suffix(time_=None, prefix='-'):\n    \"\"\"Return a time stamp (full date and time up to second)\n\n    primarily to be used for generation of log files names\n    \"\"\"\n    args = []\n    if time_ is not None:\n        if isinstance(time_, int):\n            time_ = time.gmtime(time_)\n        args.append(time_)\n    return time.strftime(prefix + TIMESTAMP_FMT, *args)\n\n\ndef get_logfilename(dspath, cmd='datalad'):\n    \"\"\"Return a filename to use for logging under a dataset/repository\n\n    directory would be created if doesn't exist, but dspath must exist\n    and be a directory\n    \"\"\"\n    assert(exists(dspath))\n    assert(isdir(dspath))\n    ds_logdir = assure_dir(dspath, '.git', 'datalad', 'logs')  # TODO: use WEB_META_LOG whenever #789 merged\n    return opj(ds_logdir, 'crawl-%s.log' % get_timestamp_suffix())\n\n\nlgr.log(5, \"Done importing datalad.utils\")\n"}
A user will ask you to solve a task. You should first draft your thinking process (inner monologue). Then, generate the solution.

Your response format must follow the template below:
<think>
Your thoughts or/and draft, like working through an exercise on scratch paper. Be as casual and as long as you want until you are confident to generate a correct solution.
</think>
<solution>
Final solution presented to the user.
</solution>
system
We are currently solving the following issue within our repository. Here is the issue text:
--- BEGIN ISSUE ---
[ISSUE]
**Title:** Using `assert_logged` with `regex=False` Raises TypeError

**Description:**
When attempting to verify logged messages without using regular expressions, passing `regex=False` to the `assert_logged` method results in a `TypeError`. This prevents developers from asserting log messages using exact string matches.

**Example Code:**
```python
import logging
from datalad.utils import swallow_logs

def test_log_assertion():
    logger = logging.getLogger('datalad.tests')
    with swallow_logs(new_level='INFO') as cm:
        logger.info('something happened')
        # Attempting to assert logged message without regex
        cm.assert_logged('something happened', regex=False)
```

**Expected Behavior:**
The log message `'something happened'` should be successfully found in the captured logs using a literal string match without raising any errors.

**Actual Behavior:**
A `TypeError` is raised with the message:
```
TypeError: assert_re_in() got multiple values for argument 'regex'
```
This error occurs because the `assert_logged` method incorrectly handles the `regex` parameter when set to `False`.

[/ISSUE]
--- END ISSUE ---

Below are some code segments, each from a relevant file. One or more of these files may contain bugs.

--- BEGIN FILE ---
```
### datalad/utils.py
# emacs: -*- mode: python; py-indent-offset: 4; tab-width: 4; indent-tabs-mode: nil -*-
# ex: set sts=4 ts=4 sw=4 noet:
# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##
#
#   See COPYING file distributed along with the datalad package for the
#   copyright and license terms.
#
# ## ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##

import collections
import re
import six.moves.builtins as __builtin__
import time

from os.path import curdir, basename, exists, realpath, islink, join as opj, isabs, normpath, expandvars, expanduser, abspath
from os.path import isdir
from six.moves.urllib.parse import quote as urlquote, unquote as urlunquote, urlsplit
from six import text_type, binary_type

import logging
import shutil
import stat
import os
import sys
import tempfile
import platform
import gc
import glob

from functools import wraps
from time import sleep
from inspect import getargspec
# from datalad.dochelpers import get_docstring_split
from datalad.consts import TIMESTAMP_FMT

lgr = logging.getLogger("datalad.utils")

lgr.log(5, "Importing datalad.utils")
#
# Some useful variables
#
_platform_system = platform.system().lower()
on_windows = _platform_system == 'windows'
on_osx = _platform_system == 'darwin'
on_linux = _platform_system == 'linux'
try:
    linux_distribution = platform.linux_distribution()
    on_debian_wheezy = on_linux \
                       and linux_distribution[0] == 'debian' \
                       and linux_distribution[1].startswith('7.')
except:  # pragma: no cover
    on_debian_wheezy = False

#
# Little helpers
#


def get_func_kwargs_doc(func):
    """ Provides args for a function
    
    Parameters
    ----------
    func: str
      name of the function from which args are being requested

    Returns
    -------
    list
      of the args that a function takes in
    """
    return getargspec(func)[0]

    # TODO: format error message with descriptions of args
    # return [repr(dict(get_docstring_split(func)[1]).get(x)) for x in getargspec(func)[0]]


def assure_tuple_or_list(obj):
    """Given an object, wrap into a tuple if not list or tuple
    """
    if isinstance(obj, list) or isinstance(obj, tuple):
        return obj
    return (obj,)


def any_re_search(regexes, value):
    """Return if any of regexes (list or str) searches succesfully for value"""
    for regex in assure_tuple_or_list(regexes):
        if re.search(regex, value):
            return True
    return False


def not_supported_on_windows(msg=None):
    """A little helper to be invoked to consistently fail whenever functionality is
    not supported (yet) on Windows
    """
    if on_windows:
        raise NotImplementedError("This functionality is not yet implemented for Windows OS"
                                  + (": %s" % msg if msg else ""))


def shortened_repr(value, l=30):
    try:
        if hasattr(value, '__repr__') and (value.__repr__ is not object.__repr__):
            value_repr = repr(value)
            if not value_repr.startswith('<') and len(value_repr) > l:
                value_repr = "<<%s...>>" % (value_repr[:l-8])
            elif value_repr.startswith('<') and value_repr.endswith('>') and ' object at 0x':
                raise ValueError("I hate those useless long reprs")
        else:
            raise ValueError("gimme class")
    except Exception as e:
        value_repr = "<%s>" % value.__class__.__name__.split('.')[-1]
    return value_repr


def __auto_repr__(obj):
    attr_names = tuple()
    if hasattr(obj, '__dict__'):
        attr_names += tuple(obj.__dict__.keys())
    if hasattr(obj, '__slots__'):
        attr_names += tuple(obj.__slots__)

    items = []
    for attr in sorted(set(attr_names)):
        if attr.startswith('_'):
            continue
        value = getattr(obj, attr)
        # TODO:  should we add this feature to minimize some talktative reprs
        # such as of URL?
        #if value is None:
        #    continue
        items.append("%s=%s" % (attr, shortened_repr(value)))

    return "%s(%s)" % (obj.__class__.__name__, ', '.join(items))

def auto_repr(cls):
    """Decorator for a class to assign it an automagic quick and dirty __repr__

    It uses public class attributes to prepare repr of a class

    Original idea: http://stackoverflow.com/a/27799004/1265472
    """

    cls.__repr__ = __auto_repr__
    return cls

def is_interactive():
    """Return True if all in/outs are tty"""
    # TODO: check on windows if hasattr check would work correctly and add value:
    #
    return sys.stdin.isatty() and sys.stdout.isatty() and sys.stderr.isatty()


import hashlib


def md5sum(filename):
    with open(filename, 'rb') as f:
        return hashlib.md5(f.read()).hexdigest()


def sorted_files(dout):
    """Return a (sorted) list of files under dout
    """
    return sorted(sum([[opj(r, f)[len(dout)+1:] for f in files]
                       for r,d,files in os.walk(dout)
                       if not '.git' in r], []))

from os.path import sep as dirsep
_VCS_REGEX = '%s\.(?:git|gitattributes|svn|bzr|hg)(?:%s|$)' % (dirsep, dirsep)
_DATALAD_REGEX = '%s\.(?:datalad)(?:%s|$)' % (dirsep, dirsep)


def find_files(regex, topdir=curdir, exclude=None, exclude_vcs=True, exclude_datalad=False, dirs=False):
    """Generator to find files matching regex

    Parameters
    ----------
    regex: basestring
    exclude: basestring, optional
      Matches to exclude
    exclude_vcs:
      If True, excludes commonly known VCS subdirectories.  If string, used
      as regex to exclude those files (regex: `%r`)
    exclude_datalad:
      If True, excludes files known to be datalad meta-data files (e.g. under
      .datalad/ subdirectory) (regex: `%r`)
    topdir: basestring, optional
      Directory where to search
    dirs: bool, optional
      Either to match directories as well as files
    """

    for dirpath, dirnames, filenames in os.walk(topdir):
        names = (dirnames + filenames) if dirs else filenames
        # TODO: might want to uniformize on windows to use '/'
        paths = (opj(dirpath, name) for name in names)
        for path in filter(re.compile(regex).search, paths):
            path = path.rstrip(dirsep)
            if exclude and re.search(exclude, path):
                continue
            if exclude_vcs and re.search(_VCS_REGEX, path):
                continue
            if exclude_datalad and re.search(_DATALAD_REGEX, path):
                continue
            yield path
find_files.__doc__ %= (_VCS_REGEX, _DATALAD_REGEX)


def expandpath(path, force_absolute=True):
    """Expand all variables and user handles in a path.

    By default return an absolute path
    """
    path = expandvars(expanduser(path))
    if force_absolute:
        path = abspath(path)
    return path


def is_explicit_path(path):
    """Return whether a path explicitly points to a location

    Any absolute path, or relative path starting with either '../' or
    './' is assumed to indicate a location on the filesystem. Any other
    path format is not considered explicit."""
    path = expandpath(path, force_absolute=False)
    return isabs(path) \
        or path.startswith(os.curdir + os.sep) \
        or path.startswith(os.pardir + os.sep)

def rotree(path, ro=True, chmod_files=True):
    """To make tree read-only or writable

    Parameters
    ----------
    path : string
      Path to the tree/directory to chmod
    ro : bool, optional
      Either to make it R/O (default) or RW
    chmod_files : bool, optional
      Either to operate also on files (not just directories)
    """
    if ro:
        chmod = lambda f: os.chmod(f, os.stat(f).st_mode & ~stat.S_IWRITE)
    else:
        chmod = lambda f: os.chmod(f, os.stat(f).st_mode | stat.S_IWRITE | stat.S_IREAD)

    for root, dirs, files in os.walk(path, followlinks=False):
        if chmod_files:
            for f in files:
                fullf = opj(root, f)
                # might be the "broken" symlink which would fail to stat etc
                if exists(fullf):
                    chmod(fullf)
        chmod(root)


def rmtree(path, chmod_files='auto', *args, **kwargs):
    """To remove git-annex .git it is needed to make all files and directories writable again first

    Parameters
    ----------
    chmod_files : string or bool, optional
       Either to make files writable also before removal.  Usually it is just
       a matter of directories to have write permissions.
       If 'auto' it would chmod files on windows by default
    `*args` :
    `**kwargs` :
       Passed into shutil.rmtree call
    """
    # Give W permissions back only to directories, no need to bother with files
    if chmod_files == 'auto':
        chmod_files = on_windows

    if not os.path.islink(path):
        rotree(path, ro=False, chmod_files=chmod_files)
        shutil.rmtree(path, *args, **kwargs)
    else:
        # just remove the symlink
        os.unlink(path)


def rmtemp(f, *args, **kwargs):
    """Wrapper to centralize removing of temp files so we could keep them around

    It will not remove the temporary file/directory if DATALAD_TESTS_KEEPTEMP
    environment variable is defined
    """
    if not os.environ.get('DATALAD_TESTS_KEEPTEMP'):
        if not os.path.lexists(f):
            lgr.debug("Path %s does not exist, so can't be removed" % f)
            return
        lgr.log(5, "Removing temp file: %s" % f)
        # Can also be a directory
        if os.path.isdir(f):
            rmtree(f, *args, **kwargs)
        else:
            for i in range(10):
                try:
                    os.unlink(f)
                except OSError as e:
                    if i < 9:
                        sleep(0.1)
                        continue
                    else:
                        raise
                break
    else:
        lgr.info("Keeping temp file: %s" % f)


def file_basename(name, return_ext=False):
    """
    Strips up to 2 extensions of length up to 4 characters and starting with alpha
    not a digit, so we could get rid of .tar.gz etc
    """
    bname = basename(name)
    fbname = re.sub('(\.[a-zA-Z_]\S{1,4}){0,2}$', '', bname)
    if return_ext:
        return fbname, bname[len(fbname)+1:]
    else:
        return fbname


def escape_filename(filename):
    """Surround filename in "" and escape " in the filename
    """
    filename = filename.replace('"', r'\"').replace('`', r'\`')
    filename = '"%s"' % filename
    return filename


def encode_filename(filename):
    """Encode unicode filename
    """
    if isinstance(filename, text_type):
        return filename.encode(sys.getfilesystemencoding())
    else:
        return filename

if on_windows:
    def lmtime(filepath, mtime):
        """Set mtime for files.  On Windows a merely adapter to os.utime
        """
        os.utime(filepath, (time.time(), mtime))
else:
    def lmtime(filepath, mtime):
        """Set mtime for files, while not de-referencing symlinks.

        To overcome absence of os.lutime

        Works only on linux and OSX ATM
        """
        from .cmd import Runner
        # convert mtime to format touch understands [[CC]YY]MMDDhhmm[.SS]
        smtime = time.strftime("%Y%m%d%H%M.%S", time.localtime(mtime))
        lgr.log(3, "Setting mtime for %s to %s == %s", filepath, mtime, smtime)
        Runner().run(['touch', '-h', '-t', '%s' % smtime, filepath])
        rfilepath = realpath(filepath)
        if islink(filepath) and exists(rfilepath):
            # trust noone - adjust also of the target file
            # since it seemed like downloading under OSX (was it using curl?)
            # didn't bother with timestamps
            lgr.log(3, "File is a symlink to %s Setting mtime for it to %s",
                    rfilepath, mtime)
            os.utime(rfilepath, (time.time(), mtime))
        # doesn't work on OSX
        # Runner().run(['touch', '-h', '-d', '@%s' % mtime, filepath])


def assure_list(s):
    """Given not a list, would place it into a list. If None - empty list is returned

    Parameters
    ----------
    s: list or anything
    """

    if isinstance(s, list):
        return s
    elif isinstance(s, tuple):
        return list(s)
    elif s is None:
        return []
    else:
        return [s]


def assure_list_from_str(s, sep='\n'):
    """Given a multiline string convert it to a list of return None if empty

    Parameters
    ----------
    s: str or list
    """

    if not s:
        return None

    if isinstance(s, list):
        return s
    return s.split(sep)


def assure_dict_from_str(s, **kwargs):
    """Given a multiline string with key=value items convert it to a dictionary

    Parameters
    ----------
    s: str or dict

    Returns None if input s is empty
    """

    if not s:
        return None

    if isinstance(s, dict):
        return s

    out = {}
    for value_str in assure_list_from_str(s, **kwargs):
        if '=' not in value_str:
            raise ValueError("{} is not in key=value format".format(repr(value_str)))
        k, v = value_str.split('=', 1)
        if k in out:
            err  = "key {} was already defined in {}, but new value {} was provided".format(k, out, v)
            raise ValueError(err)
        out[k] = v
    return out


def unique(seq, key=None):
    """Given a sequence return a list only with unique elements while maintaining order

    This is the fastest solution.  See
    https://www.peterbe.com/plog/uniqifiers-benchmark
    and
    http://stackoverflow.com/a/480227/1265472
    for more information.
    Enhancement -- added ability to compare for uniqueness using a key function

    Parameters
    ----------
    seq:
      Sequence to analyze
    key: callable, optional
      Function to call on each element so we could decide not on a full
      element, but on its member etc
    """
    seen = set()
    seen_add = seen.add
    if not key:
        return [x for x in seq if not (x in seen or seen_add(x))]
    else:
        # OPT: could be optimized, since key is called twice, but for our cases
        # should be just as fine
        return [x for x in seq if not (key(x) in seen or seen_add(key(x)))]

#
# Decorators
#

# Borrowed from pandas
# Copyright: 2011-2014, Lambda Foundry, Inc. and PyData Development Team
# Licese: BSD-3
def optional_args(decorator):
    """allows a decorator to take optional positional and keyword arguments.
        Assumes that taking a single, callable, positional argument means that
        it is decorating a function, i.e. something like this::

            @my_decorator
            def function(): pass

        Calls decorator with decorator(f, `*args`, `**kwargs`)"""

    @wraps(decorator)
    def wrapper(*args, **kwargs):
        def dec(f):
            return decorator(f, *args, **kwargs)

        is_decorating = not kwargs and len(args) == 1 and isinstance(args[0], collections.Callable)
        if is_decorating:
            f = args[0]
            args = []
            return dec(f)
        else:
            return dec

    return wrapper


# TODO: just provide decorators for tempfile.mk* functions. This is ugly!
def get_tempfile_kwargs(tkwargs={}, prefix="", wrapped=None):
    """Updates kwargs to be passed to tempfile. calls depending on env vars
    """
    # operate on a copy of tkwargs to avoid any side-effects
    tkwargs_ = tkwargs.copy()

    # TODO: don't remember why I had this one originally
    # if len(targs)<2 and \
    if 'prefix' not in tkwargs_:
        tkwargs_['prefix'] = '_'.join(
            ['datalad_temp'] +
            ([prefix] if prefix else []) +
            ([''] if (on_windows or not wrapped)
                  else [wrapped.__name__]))

    directory = os.environ.get('DATALAD_TESTS_TEMPDIR')
    if directory and 'dir' not in tkwargs_:
        tkwargs_['dir'] = directory

    return tkwargs_

@optional_args
def line_profile(func):
    """Q&D helper to line profile the function and spit out stats
    """
    import line_profiler
    prof = line_profiler.LineProfiler()

    @wraps(func)
    def newfunc(*args, **kwargs):
        try:
            pfunc = prof(func)
            return pfunc(*args, **kwargs)
        finally:
            prof.print_stats()
    return newfunc

#
# Context Managers
#

from contextlib import contextmanager

@contextmanager
def swallow_outputs():
    """Context manager to help consuming both stdout and stderr, and print()

    stdout is available as cm.out and stderr as cm.err whenever cm is the
    yielded context manager.
    Internally uses temporary files to guarantee absent side-effects of swallowing
    into StringIO which lacks .fileno.

    print mocking is necessary for some uses where sys.stdout was already bound
    to original sys.stdout, thus mocking it later had no effect. Overriding
    print function had desired effect
    """

    debugout = sys.stdout
    class StringIOAdapter(object):
        """Little adapter to help getting out/err values
        """
        def __init__(self):
            kw = get_tempfile_kwargs({}, prefix="outputs")

            self._out = open(tempfile.mktemp(**kw), 'w')
            self._err = open(tempfile.mktemp(**kw), 'w')

        def _read(self, h):
            with open(h.name) as f:
                return f.read()

        @property
        def out(self):
            self._out.flush()
            return self._read(self._out)

        @property
        def err(self):
            self._err.flush()
            return self._read(self._err)

        @property
        def handles(self):
            return self._out, self._err

        def cleanup(self):
            self._out.close()
            self._err.close()
            out_name = self._out.name
            err_name = self._err.name
            del self._out
            del self._err
            gc.collect()
            rmtemp(out_name)
            rmtemp(err_name)



    def fake_print(*args, **kwargs):
        sep = kwargs.pop('sep', ' ')
        end = kwargs.pop('end', '\n')
        file = kwargs.pop('file', sys.stdout)

        if file in (oldout, olderr, sys.stdout, sys.stderr):
            # we mock
            sys.stdout.write(sep.join(args) + end)
        else:
            # must be some other file one -- leave it alone
            oldprint(*args, sep=sep, end=end, file=file)

    from .ui import ui
    # preserve -- they could have been mocked already
    oldprint = getattr(__builtin__, 'print')
    oldout, olderr = sys.stdout, sys.stderr
    olduiout = ui.out
    adapter = StringIOAdapter()

    try:
        sys.stdout, sys.stderr = adapter.handles
        ui.out = adapter.handles[0]
        setattr(__builtin__, 'print', fake_print)

        yield adapter
    finally:
        sys.stdout, sys.stderr, ui.out = oldout, olderr, olduiout
        setattr(__builtin__, 'print',  oldprint)
        adapter.cleanup()


@contextmanager
def swallow_logs(new_level=None, file_=None):
    """Context manager to consume all logs.

    """
    lgr = logging.getLogger("datalad")

    # Keep old settings
    old_level = lgr.level
    old_handlers = lgr.handlers

    # Let's log everything into a string
    # TODO: generalize with the one for swallow_outputs
    class StringIOAdapter(object):
        """Little adapter to help getting out values

        And to stay consistent with how swallow_outputs behaves
        """
        def __init__(self):
            if file_ is None:
                kw = get_tempfile_kwargs({}, prefix="logs")
                out_file = tempfile.mktemp(**kw)
            else:
                out_file = file_
            # PY3 requires clearly one or another.  race condition possible
            self._out = open(out_file, 'a')
            self._final_out = None

        def _read(self, h):
            with open(h.name) as f:
                return f.read()

        @property
        def out(self):
            if self._final_out is not None:
                # we closed and cleaned up already
                return self._final_out
            else:
                self._out.flush()
                return self._read(self._out)

        @property
        def lines(self):
            return self.out.split('\n')

        @property
        def handle(self):
            return self._out

        def cleanup(self):
            # store for access while object exists
            self._final_out = self.out
            self._out.close()
            out_name = self._out.name
            del self._out
            gc.collect()
            if not file_:
                rmtemp(out_name)

        def assert_logged(self, msg=None, level=None, **kwargs):
            """Provide assertion on either a msg was logged at a given level

            If neither `msg` nor `level` provided, checks if anything was logged
            at all.

            Parameters
            ----------
            msg: str, optional
              Message (as a regular expression) to be searched.
              If no msg provided, checks if anything was logged at a given level.
            level: str, optional
              String representing the level to be logged
            **kwargs: str, optional
              Passed to `assert_re_in`
            """
            from datalad.tests.utils import assert_re_in
            regex = '\[%s\] ' % level if level else "\[\S+\] "
            if msg:
                regex += msg

            if regex:
                assert_re_in(regex, self.out, **kwargs)
            else:
                assert not kwargs, "no kwargs to be passed anywhere"
                assert self.out, "Nothing was logged!?"


    adapter = StringIOAdapter()
    # TODO: it does store messages but without any formatting, i.e. even without
    # date/time prefix etc.  IMHO it should preserve formatting in case if file_ is
    # set
    swallow_handler = logging.StreamHandler(adapter.handle)
    # we want to log levelname so we could test against it
    swallow_handler.setFormatter(
        logging.Formatter('[%(levelname)s] %(message)s'))
    lgr.handlers = [swallow_handler]
    if old_level < logging.DEBUG:  # so if HEAVYDEBUG etc -- show them!
        lgr.handlers += old_handlers

    if isinstance(new_level, str):
        new_level = getattr(logging, new_level)

    if new_level is not None:
        lgr.setLevel(new_level)

    try:
        yield adapter
        # TODO: if file_ and there was an exception -- most probably worth logging it?
        # although ideally it should be the next log outside added to that file_ ... oh well
    finally:
        lgr.handlers, lgr.level = old_handlers, old_level
        adapter.cleanup()


#
# Additional handlers
#
_sys_excepthook = sys.excepthook  # Just in case we ever need original one
def setup_exceptionhook(ipython=False):
    """Overloads default sys.excepthook with our exceptionhook handler.

       If interactive, our exceptionhook handler will invoke
       pdb.post_mortem; if not interactive, then invokes default handler.
    """

    def _datalad_pdb_excepthook(type, value, tb):
        import traceback
        traceback.print_exception(type, value, tb)
        print()
        if is_interactive():
            import pdb
            pdb.post_mortem(tb)

    if ipython:
        from IPython.core import ultratb
        sys.excepthook = ultratb.FormattedTB(mode='Verbose',
                                             # color_scheme='Linux',
                                             call_pdb=is_interactive())
    else:
        sys.excepthook = _datalad_pdb_excepthook


def assure_dir(*args):
    """Make sure directory exists.

    Joins the list of arguments to an os-specific path to the desired
    directory and creates it, if it not exists yet.
    """
    dirname = opj(*args)
    if not exists(dirname):
        os.makedirs(dirname)
    return dirname

def updated(d, update):
    """Return a copy of the input with the 'update'

    Primarily for updating dictionaries
    """
    d = d.copy()
    d.update(update)
    return d

def getpwd():
    """Try to return a CWD without dereferencing possible symlinks

    If no PWD found in the env, output of getcwd() is returned
    """
    try:
        return os.environ['PWD']
    except KeyError:
        return os.getcwd()

class chpwd(object):
    """Wrapper around os.chdir which also adjusts environ['PWD']

    The reason is that otherwise PWD is simply inherited from the shell
    and we have no ability to assess directory path without dereferencing
    symlinks.

    If used as a context manager it allows to temporarily change directory
    to the given path
    """
    def __init__(self, path, mkdir=False, logsuffix=''):

        if path:
            pwd = getpwd()
            self._prev_pwd = pwd
        else:
            self._prev_pwd = None
            return

        if not isabs(path):
            path = normpath(opj(pwd, path))
        if not os.path.exists(path) and mkdir:
            self._mkdir = True
            os.mkdir(path)
        else:
            self._mkdir = False
        lgr.debug("chdir %r -> %r %s", self._prev_pwd, path, logsuffix)
        os.chdir(path)  # for grep people -- ok, to chdir here!
        os.environ['PWD'] = path

    def __enter__(self):
        # nothing more to do really, chdir was in the constructor
        pass

    def __exit__(self, exc_type, exc_val, exc_tb):
        if self._prev_pwd:
            # Need to use self.__class__ so this instance, if the entire
            # thing mocked during the test, still would use correct chpwd
            self.__class__(self._prev_pwd, logsuffix="(coming back)")


def knows_annex(path):
    """Returns whether at a given path there is information about an annex

    It is just a thin wrapper around GitRepo.is_with_annex() classmethod
    which also checks for `path` to exist first.

    This includes actually present annexes, but also uninitialized ones, or
    even the presence of a remote annex branch.
    """
    from os.path import exists
    if not exists(path):
        lgr.debug("No annex: test path {0} doesn't exist".format(path))
        return False
    from datalad.support.gitrepo import GitRepo
    return GitRepo(path, init=False, create=False).is_with_annex()


@contextmanager
def make_tempfile(content=None, wrapped=None, **tkwargs):
    """Helper class to provide a temporary file name and remove it at the end (context manager)

    Parameters
    ----------
    mkdir : bool, optional (default: False)
        If True, temporary directory created using tempfile.mkdtemp()
    content : str or bytes, optional
        Content to be stored in the file created
    wrapped : function, optional
        If set, function name used to prefix temporary file name
    `**tkwargs`:
        All other arguments are passed into the call to tempfile.mk{,d}temp(),
        and resultant temporary filename is passed as the first argument into
        the function t.  If no 'prefix' argument is provided, it will be
        constructed using module and function names ('.' replaced with
        '_').

    To change the used directory without providing keyword argument 'dir' set
    DATALAD_TESTS_TEMPDIR.

    Examples
    --------
        >>> from os.path import exists
        >>> from datalad.utils import make_tempfile
        >>> with make_tempfile() as fname:
        ...    k = open(fname, 'w').write('silly test')
        >>> assert not exists(fname)  # was removed

        >>> with make_tempfile(content="blah") as fname:
        ...    assert open(fname).read() == "blah"
    """

    if tkwargs.get('mkdir', None) and content is not None:
        raise ValueError("mkdir=True while providing content makes no sense")

    tkwargs_ = get_tempfile_kwargs(tkwargs, wrapped=wrapped)

    # if DATALAD_TESTS_TEMPDIR is set, use that as directory,
    # let mktemp handle it otherwise. However, an explicitly provided
    # dir=... will override this.
    mkdir = tkwargs_.pop('mkdir', False)

    filename = {False: tempfile.mktemp,
                True: tempfile.mkdtemp}[mkdir](**tkwargs_)
    filename = realpath(filename)

    if content:
        with open(filename, 'w' + ('b' if isinstance(content, binary_type) else '')) as f:
            f.write(content)

    if __debug__:
        # TODO mkdir
        lgr.debug('Created temporary thing named %s"' % filename)
    try:
        yield filename
    finally:
        # glob here for all files with the same name (-suffix)
        # would be useful whenever we requested .img filename,
        # and function creates .hdr as well
        lsuffix = len(tkwargs_.get('suffix', ''))
        filename_ = lsuffix and filename[:-lsuffix] or filename
        filenames = glob.glob(filename_ + '*')
        if len(filename_) < 3 or len(filenames) > 5:
            # For paranoid yoh who stepped into this already ones ;-)
            lgr.warning("It is unlikely that it was intended to remove all"
                        " files matching %r. Skipping" % filename_)
            return
        for f in filenames:
            try:
                rmtemp(f)
            except OSError:
                pass


def _path_(*p):
    """Given a path in POSIX" notation, regenerate one in native to the env one"""
    if on_windows:
        return opj(*map(lambda x: x.split('/'), p))
    else:
        # Assume that all others as POSIX compliant so nothing to be done
        return opj(*p)


def get_timestamp_suffix(time_=None, prefix='-'):
    """Return a time stamp (full date and time up to second)

    primarily to be used for generation of log files names
    """
    args = []
    if time_ is not None:
        if isinstance(time_, int):
            time_ = time.gmtime(time_)
        args.append(time_)
    return time.strftime(prefix + TIMESTAMP_FMT, *args)


def get_logfilename(dspath, cmd='datalad'):
    """Return a filename to use for logging under a dataset/repository

    directory would be created if doesn't exist, but dspath must exist
    and be a directory
    """
    assert(exists(dspath))
    assert(isdir(dspath))
    ds_logdir = assure_dir(dspath, '.git', 'datalad', 'logs')  # TODO: use WEB_META_LOG whenever #789 merged
    return opj(ds_logdir, 'crawl-%s.log' % get_timestamp_suffix())


lgr.log(5, "Done importing datalad.utils")

```
--- END FILE ---

Please first localize the bug based on the issue statement, and then generate *SEARCH/REPLACE* edits to fix the issue.

Every *SEARCH/REPLACE* edit must use this format:
1. The file path
2. The start of search block: <<<<<<< SEARCH
3. A contiguous chunk of lines to search for in the existing source code
4. The dividing line: =======
5. The lines to replace into the source code
6. The end of the replace block: >>>>>>> REPLACE

Here is an example:

```python
### mathweb/flask/app.py
<<<<<<< SEARCH
from flask import Flask
=======
import math
from flask import Flask
>>>>>>> REPLACE
```
</solution>

Please note that the *SEARCH/REPLACE* edit REQUIRES PROPER INDENTATION. If you would like to add the line '        print(x)', you must fully write that out, with all those spaces before the code!
Wrap each *SEARCH/REPLACE* edit in a code block as shown in the example above. If you have multiple *SEARCH/REPLACE* edits, use a separate code block for each one.
user