internlm/SWE-Fixer-Train-110K huggingface dataset:
Repository: pypa/pip

Issue:
Can't run tests with py.test
[Documented](https://pip.pypa.io/en/stable/development/#running-tests) way of running tests with just `py.test` doesn't work.
```
# py.test
Traceback (most recent call last):
  File "/usr/local/lib/python2.7/dist-packages/_pytest/config.py", line 379, in _importconftest
    mod = conftestpath.pyimport()
  File "/usr/local/lib/python2.7/dist-packages/py/_path/local.py", line 668, in pyimport
    __import__(modname)
  File "/usr/local/lib/python2.7/dist-packages/_pytest/assertion/rewrite.py", line 212, in load_module
    py.builtin.exec_(co, mod.__dict__)
  File "/usr/local/lib/python2.7/dist-packages/py/_builtin.py", line 221, in exec_
    exec2(obj, globals, locals)
  File "<string>", line 7, in exec2
  File "/root/pip/tests/conftest.py", line 10, in <module>
    import pip._internal
ImportError: No module named _internal
ERROR: could not load /root/pip/tests/conftest.py
```
`tox` runs fine though.


Discussion:
You need to add src to the Python path: `PYTHONPATH=$PWD/src py.test`
And yes the documentation should be updated :P.
Command helps, but tests fail - https://pastebin.mozilla.org/9073260 - which is strange, considering that builds are green.
I think the tests ran invoked the system pip. (`/usr/bin/pip` on line 58 makes me think so)

I, for one, use the tox environment itself -- with `./.tox/py36/bin/py.test` aliased to `tox-pytest` (and a `tox-pip` as well).

Also, to pass arguments to pytest through tox, you can run tests as `tox -e py36 -- {args}` and they'll get passed to the underlying pytest call.
`.tox/py27/bin/py.test tests/functional/test_install_reqs.py` fixes 2 tests and 3 still fail - https://pastebin.mozilla.org/?diff=9073266

`tox -e py27 -- tests/functional/test_install_reqs.py` gives the same result.
One of them seems to be because SVN isn't installed. The other seems to be a more esoteric error. One of them is an expected failure.
@techtonik Anything actionable here?
(note: the documentation has been updated to say install everything in `dev-requirements.txt`)
Closing due to lack of activity.
@pradyunsg actionable - open https://pip.pypa.io/en/stable/development/#running-tests and run tests with all ways to confirm it is broken for you too.
i believe all thats needed is a note to run the test against the installed pip ^^

Resolving patch:
diff --git a/docs/conf.py b/docs/conf.py
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -127,6 +127,7 @@
 extlinks = {
     'issue': ('https://github.com/pypa/pip/issues/%s', '#'),
     'pull': ('https://github.com/pypa/pip/pull/%s', 'PR #'),
+    'pypi': ('https://pypi.org/project/%s', ''),
 }
 
 # -- Options for HTML output --------------------------------------------------


Test patch:
Repository: pypa/pip

Issue:
Use a helper to ensure tox always runs a known-good pip version
Similar to #4657 

Adds a helper that backs up a known good pip on the first invocation in a tox venv and replaces the installed version with that on every subsequent run. Arguably there's scope for improvement here by not replacing unless it might be broken but I'd consider that an optimization.

This change as it stands, means breaking pip horribly does not result in tox environments not being functional, which is an improvement.


Discussion:
@pfmoore Could you take this for a spin on Windows, and see how this fits with your workflow?


Resolving patch:
diff --git a/tools/tox_pip.py b/tools/tox_pip.py
new file mode 100644
--- /dev/null
+++ b/tools/tox_pip.py
@@ -0,0 +1,28 @@
+import os
+import shutil
+import subprocess
+import sys
+from glob import glob
+
+VIRTUAL_ENV = os.environ['VIRTUAL_ENV']
+TOX_PIP_DIR = os.path.join(VIRTUAL_ENV, 'pip')
+
+
+def pip(args):
+    # First things first, get a recent (stable) version of pip.
+    if not os.path.exists(TOX_PIP_DIR):
+        subprocess.check_call([sys.executable, '-m', 'pip',
+                               '--disable-pip-version-check',
+                               'install', '-t', TOX_PIP_DIR,
+                               'pip'])
+        shutil.rmtree(glob(os.path.join(TOX_PIP_DIR, 'pip-*.dist-info'))[0])
+    # And use that version.
+    pypath = os.environ.get('PYTHONPATH')
+    pypath = pypath.split(os.pathsep) if pypath is not None else []
+    pypath.insert(0, TOX_PIP_DIR)
+    os.environ['PYTHONPATH'] = os.pathsep.join(pypath)
+    subprocess.check_call([sys.executable, '-m', 'pip'] + args)
+
+
+if __name__ == '__main__':
+    pip(sys.argv[1:])


Test patch:
Repository: pypa/pip

Issue:
Fix/5147
Suppress the output of the stack trace when `pip install` is called with an invalid requirement.



Discussion:
Hey @venthur! Thanks for this PR!

We're currently in the beta period for pip 10.0, which means we won't be merging any new features or enhancements until pip 10.0.0 is released.

Sorry to keep you waiting but I hope you'd understand. :)
Refreshed the patch.
Let's improve the error message in packaging and then we'll modify this to just print whatever that's printing.

@pradyunsg https://github.com/pypa/packaging/pull/129
@venthur Yep. I posted a comment there. :)
Pushing this down the road to the next release since I don't think this'd happen in time for 18.0.
Hello!

I am an automated bot and I have noticed that this pull request is not currently able to be merged. If you are able to either merge the ``master`` branch into this pull request or rebase this pull request against ``master`` then it will eligible for code review and hopefully merging!
Dropping this from 18.1 since I don't think this'll be ready in time (by 30th this month).


Resolving patch:
diff --git a/src/pip/_internal/req/constructors.py b/src/pip/_internal/req/constructors.py
--- a/src/pip/_internal/req/constructors.py
+++ b/src/pip/_internal/req/constructors.py
@@ -11,7 +11,6 @@
 import logging
 import os
 import re
-import traceback
 
 from pip._vendor.packaging.markers import Marker
 from pip._vendor.packaging.requirements import InvalidRequirement, Requirement
@@ -258,7 +257,7 @@ def install_req_from_line(
             elif '=' in req and not any(op in req for op in operators):
                 add_msg = "= is not a valid operator. Did you mean == ?"
             else:
-                add_msg = traceback.format_exc()
+                add_msg = ""
             raise InstallationError(
                 "Invalid requirement: '%s'\n%s" % (req, add_msg)
             )


Test patch:
diff --git a/tests/unit/test_req.py b/tests/unit/test_req.py
--- a/tests/unit/test_req.py
+++ b/tests/unit/test_req.py
@@ -542,12 +542,12 @@ def test_single_equal_sign(self):
         assert "Invalid requirement" in err_msg
         assert "= is not a valid operator. Did you mean == ?" in err_msg
 
-    def test_traceback(self):
+    def test_unidentifiable_name(self):
+        test_name = '-'
         with pytest.raises(InstallationError) as e:
-            install_req_from_line('toto 42')
+            install_req_from_line(test_name)
         err_msg = e.value.args[0]
-        assert "Invalid requirement" in err_msg
-        assert "\nTraceback " in err_msg
+        assert ("Invalid requirement: '%s'\n" % test_name) == err_msg
 
     def test_requirement_file(self):
         req_file_path = os.path.join(self.tempdir, 'test.txt')
Repository: pypa/pip

Issue:
pip autocompletion should silence of KeyboardInterrupts
- Pip version: 8.1.2
- Python version: 3.5.2
- Operating System: Arch Linux
### Description:

`pip uninstall <TAB>` quickly followed by Ctrl-C causes a traceback (associated with the KeyboardInterrupt) to be printed.  This traceback should arguably not be displayed.

A simple fix would be to change `pip completion --zsh` (and similarly `--bash`) to

```
# pip zsh completion start
function _pip_completion {
  local words cword
  read -Ac words
  read -cn cword
  reply=( $( COMP_WORDS="$words[*]" \
             COMP_CWORD=$(( cword-1 )) \
             PIP_AUTO_COMPLETE=1 $words[1] 2>/dev/null ) ) # note the redirection.
}
compctl -K _pip_completion pip
# pip zsh completion end
```



Discussion:

Resolving patch:
diff --git a/src/pip/_internal/commands/completion.py b/src/pip/_internal/commands/completion.py
--- a/src/pip/_internal/commands/completion.py
+++ b/src/pip/_internal/commands/completion.py
@@ -16,7 +16,7 @@
         {
             COMPREPLY=( $( COMP_WORDS="${COMP_WORDS[*]}" \\
                            COMP_CWORD=$COMP_CWORD \\
-                           PIP_AUTO_COMPLETE=1 $1 ) )
+                           PIP_AUTO_COMPLETE=1 $1 2>/dev/null ) )
         }
         complete -o default -F _pip_completion %(prog)s
     """,
@@ -27,7 +27,7 @@
           read -cn cword
           reply=( $( COMP_WORDS="$words[*]" \\
                      COMP_CWORD=$(( cword-1 )) \\
-                     PIP_AUTO_COMPLETE=1 $words[1] ) )
+                     PIP_AUTO_COMPLETE=1 $words[1] 2>/dev/null ))
         }
         compctl -K _pip_completion %(prog)s
     """,


Test patch:
diff --git a/tests/functional/test_completion.py b/tests/functional/test_completion.py
--- a/tests/functional/test_completion.py
+++ b/tests/functional/test_completion.py
@@ -9,7 +9,7 @@
 {
     COMPREPLY=( $( COMP_WORDS="${COMP_WORDS[*]}" \\
                    COMP_CWORD=$COMP_CWORD \\
-                   PIP_AUTO_COMPLETE=1 $1 ) )
+                   PIP_AUTO_COMPLETE=1 $1 2>/dev/null ) )
 }
 complete -o default -F _pip_completion pip"""),
     ('fish', """\
@@ -29,7 +29,7 @@
   read -cn cword
   reply=( $( COMP_WORDS="$words[*]" \\
              COMP_CWORD=$(( cword-1 )) \\
-             PIP_AUTO_COMPLETE=1 $words[1] ) )
+             PIP_AUTO_COMPLETE=1 $words[1] 2>/dev/null ))
 }
 compctl -K _pip_completion pip"""),
 )
Repository: pypa/pip

Issue:
Comment regular expression in `req_file` causing `maximum recursion depth exceeded`
- Pip version: HEAD
- Python version: Jython 2.7
- Operating System: Linux
### Description:

Take a look at `COMMENT_RE` in `pip/req/req_file.py` ([view code at a4d1ec2e75b](https://github.com/pypa/pip/blob/a4d1ec2e75b5f6df7f5592f5a50cf8c52e3377c1/pip/req/req_file.py#L27)):

``` python
COMMENT_RE = re.compile(r'(^|\s)+#.*$')
```

On Jython 2.7 (what is dead can never die) this expression compiles, but when you attempt to use it to match a line it will throw a `RuntimeError: maximum recursion depth exceeded`.

I believe the following expression would have the same behavior in the two situations the current expression is used (replacing commented lines with empty string, and capturing the whitespace preceding a comment):

``` python
COMMENT_RE = re.compile('^(\s)*#.*$')
```
### What I've run:

Anything to do with reading a requirements file. For instance:

```
pip install -r some/requirements.txt
```
### Suggested fix

Replace existing `COMMENT_RE` in `pip/req/req_file.py` with:

``` python
COMMENT_RE = re.compile('^(\s)*#.*$')
```



Discussion:
Can you make a pull request with your suggested fix?
The proposed fix will not work, i.e. this test case among others will fail:
`http://example.com # comment == 'http://example.com`
It's also worth stating that this is really a bug in Jython - there's no obvious reason why matching with that RE should result in a `RuntimeError: maximum recursion depth exceeded` exception. I'm OK with modifying the RE to work around that bug, but note that we don't formally support Jython anyway, so it's not going to be a high priority, and keeping existing behaviour is more important.

Resolving patch:
diff --git a/src/pip/_internal/req/req_file.py b/src/pip/_internal/req/req_file.py
--- a/src/pip/_internal/req/req_file.py
+++ b/src/pip/_internal/req/req_file.py
@@ -23,7 +23,7 @@
 __all__ = ['parse_requirements']
 
 SCHEME_RE = re.compile(r'^(http|https|file):', re.I)
-COMMENT_RE = re.compile(r'(^|\s)+#.*$')
+COMMENT_RE = re.compile(r'(^|\s+)#.*$')
 
 # Matches environment variable-style values in '${MY_VARIABLE_1}' with the
 # variable name consisting of only uppercase letters, digits or the '_'


Test patch:
Repository: pypa/pip

Issue:
Indexes with password are not redacted when using --no-index --verbose

```
$ pip -V
pip 18.1 from /home/xfernandez/.virtualenvs/tmp-13c0d8450eb8175/lib/python3.7/site-packages/pip (python 3.7)
$ pip install mccabe --no-index -v
Ignoring indexes: https://user:supers3cret@pypi.example.com/root/ci/+simple/
Created temporary directory: /tmp/pip-ephem-wheel-cache-lcf7j0sa
Created temporary directory: /tmp/pip-req-tracker-mqzoa99d
Created requirements tracker '/tmp/pip-req-tracker-mqzoa99d'
Created temporary directory: /tmp/pip-install-_ecz3ykx
Requirement already satisfied: mccabe in ./lib/python3.7/site-packages (0.6.1)
Cleaning up...
Removed build tracker '/tmp/pip-req-tracker-mqzoa99d'
```



Discussion:

Resolving patch:
diff --git a/src/pip/_internal/cli/base_command.py b/src/pip/_internal/cli/base_command.py
--- a/src/pip/_internal/cli/base_command.py
+++ b/src/pip/_internal/cli/base_command.py
@@ -27,7 +27,9 @@
 )
 from pip._internal.req.req_file import parse_requirements
 from pip._internal.utils.logging import setup_logging
-from pip._internal.utils.misc import get_prog, normalize_path
+from pip._internal.utils.misc import (
+    get_prog, normalize_path, redact_password_from_url,
+)
 from pip._internal.utils.outdated import pip_version_check
 from pip._internal.utils.typing import MYPY_CHECK_RUNNING
 
@@ -287,7 +289,10 @@ def _build_package_finder(
         """
         index_urls = [options.index_url] + options.extra_index_urls
         if options.no_index:
-            logger.debug('Ignoring indexes: %s', ','.join(index_urls))
+            logger.debug(
+                'Ignoring indexes: %s',
+                ','.join(redact_password_from_url(url) for url in index_urls),
+            )
             index_urls = []
 
         return PackageFinder(


Test patch:
Repository: pypa/pip

Issue:
ensure_dir() should also check for ENOTEMPTY
**Environment**

* pip version:
pip 19.0.3

* Python version:
python 3.7

* OS:
'python:3.7-alpine3.9' docker image (docker-ce 17.9) running on Ubuntu 18.04.2 LTS in WSL (Windows)

**Description**
`pip install pipenv` fails with the following error:
> Could not install packages due to an EnvironmentError: [Errno 39] Directory not empty: '/tmp/pip-install-wx86kab7/pipenv/pipenv'

**How to Reproduce**

1. Set up environment as described above (alpine3.9, on docker-ce 17.9, running on Ubuntu in WSL).  and run the command.

2. `apk --update add --virtual build-dependencies libffi-dev openssl-dev build-base`
3. `pip install --upgrade pip`
4. `pip install pipenv`

**Output**
> Could not install packages due to an EnvironmentError: [Errno 39] Directory not empty: '/tmp/pip-install-wx86kab7/pipenv/pipenv'

**Investigation**
Compared strace results of a successful run (on a different env) vs the failed run.
On a successful run, the `mkdir` command is continually executed with `/tmp/pip-install-<hash>/pipenv/pipenv` as an argument and fails with an `EEXIST` error. However, on the failed run the same command fails with an `ENOTEMPT` error. This has to do with the environment itself (maybe docker/windows related), as the same difference is observed when simply performing mkdir from a shell.




Discussion:

Resolving patch:
diff --git a/src/pip/_internal/utils/misc.py b/src/pip/_internal/utils/misc.py
--- a/src/pip/_internal/utils/misc.py
+++ b/src/pip/_internal/utils/misc.py
@@ -98,7 +98,8 @@ def ensure_dir(path):
     try:
         os.makedirs(path)
     except OSError as e:
-        if e.errno != errno.EEXIST:
+        # Windows can raise spurious ENOTEMPTY errors. See #6426.
+        if e.errno != errno.EEXIST and e.errno != errno.ENOTEMPTY:
             raise
 
 


Test patch:
Repository: pypa/pip

Issue:
Setting config value with --venv flag fails outside venv
**Environment**

* pip version: b47b2fa8
* Python version: 3.7.0
* OS: Debian unstable

I'm running inside a conda env, though that should not matter.

**Description**
Setting config value with `--venv` flag fails outside of a virtualenv:

```
Fatal Internal error [id=2]. Please report as a bug.
```

**Expected behavior**

Detect I'm outside a virtualenv and fail gracefully and with a sensible error message.

**How to Reproduce**

Run e.g. the following:
```
pip config --venv set isolated true
```


Discussion:

Resolving patch:
diff --git a/src/pip/_internal/configuration.py b/src/pip/_internal/configuration.py
--- a/src/pip/_internal/configuration.py
+++ b/src/pip/_internal/configuration.py
@@ -50,6 +50,12 @@ def _normalize_name(name):
 
 def _disassemble_key(name):
     # type: (str) -> List[str]
+    if "." not in name:
+        error_message = (
+            "Key does not contain dot separated section and key. "
+            "Perhaps you wanted to use 'global.{}' instead?"
+        ).format(name)
+        raise ConfigurationError(error_message)
     return name.split(".", 1)
 
 


Test patch:
diff --git a/tests/functional/test_configuration.py b/tests/functional/test_configuration.py
--- a/tests/functional/test_configuration.py
+++ b/tests/functional/test_configuration.py
@@ -57,3 +57,8 @@ def test_listing_is_correct(self, script):
         """
 
         assert lines == textwrap.dedent(expected).strip().splitlines()
+
+    def test_forget_section(self, script):
+        result = script.pip("config", "set", "isolated", "true",
+                            expect_error=True)
+        assert "global.isolated" in result.stderr
Repository: pypa/pip

Issue:
Pip3 freeze outputs Could not parse requirement: -BB
* Pip version: 19.0.3
* Python version: 3.7.3
* Operating system: MacOS 10.14.4

I am trying to clean a bit my system-wide pip3 package to move all the development to the respective virtual environments.
I managed to remove all the pip3 packages, but right now I am getting such output for `pip3 freeze:` 

```
➜  ~ pip3 freeze
Could not parse requirement: -BB
```

What can be the reason for such output?



Discussion:
Marking as a bug because the error doesn’t provide enough info to let the user diagnose.

@Jendker What happens if you pass the verbose option -vvv?

Resolving patch:
diff --git a/src/pip/_internal/operations/freeze.py b/src/pip/_internal/operations/freeze.py
--- a/src/pip/_internal/operations/freeze.py
+++ b/src/pip/_internal/operations/freeze.py
@@ -60,10 +60,14 @@ def freeze(
                                             user_only=user_only):
         try:
             req = FrozenRequirement.from_dist(dist)
-        except RequirementParseError:
+        except RequirementParseError as exc:
+            # We include dist rather than dist.project_name because the
+            # dist string includes more information, like the version and
+            # location. We also include the exception message to aid
+            # troubleshooting.
             logger.warning(
-                "Could not parse requirement: %s",
-                dist.project_name
+                'Could not generate requirement for distribution %r: %s',
+                dist, exc
             )
             continue
         if exclude_editable and req.editable:


Test patch:
diff --git a/tests/functional/test_freeze.py b/tests/functional/test_freeze.py
--- a/tests/functional/test_freeze.py
+++ b/tests/functional/test_freeze.py
@@ -108,12 +108,19 @@ def fake_install(pkgname, dest):
             '...{}==1.0...'.format(pkgname.replace('_', '-'))
         )
     for pkgname in invalid_pkgnames:
-        _check_output(
-            result.stderr,
-            '...Could not parse requirement: {}\n...'.format(
-                pkgname.replace('_', '-')
-            )
+        # Check that the full distribution repr is present.
+        dist_repr = '{} 1.0 ('.format(pkgname.replace('_', '-'))
+        expected = (
+            '...Could not generate requirement for '
+            'distribution {}...'.format(dist_repr)
         )
+        _check_output(result.stderr, expected)
+
+    # Also check that the parse error details occur at least once.
+    # We only need to find one occurrence to know that exception details
+    # are logged.
+    expected = '...site-packages): Parse error at "...'
+    _check_output(result.stderr, expected)
 
 
 @pytest.mark.git
Repository: pypa/pip

Issue:
Replace overly specific function definition with more general alternative
In `outdated.py`, there is a function definition for `was_installed_by_pip` which can be simplified (or gotten rid of), by using `get_installer` defined in another file.

https://github.com/pypa/pip/blob/ba539093754bc96dcdb7f4a48911deffcbcc8725/src/pip/_internal/utils/outdated.py#L79

https://github.com/pypa/pip/blob/ba539093754bc96dcdb7f4a48911deffcbcc8725/src/pip/_internal/utils/packaging.py#L86



Discussion:
@pradyunsg I'm going to check this Issue
Some of the details may have changed from the first post, so do let me know if that's the case. :)
@pradyunsg Could this be something like that?

```
from pip._internal.utils import get_installer

def was_installed_by_pip(pkg):
    # type: (str) -> bool
    """Checks whether pkg was installed by pip
    This is used not to display the upgrade message when pip is in fact
    installed by system package manager, such as dnf on Fedora.
    """
    try:
        dist = pkg_resources.get_distribution(pkg)
        return ('pip' in get_installer(dist))
    except pkg_resources.DistributionNotFound:
        return False
```
> def was_installed_by_pip(pkg):
>     # type: (str) -> bool
>     """Checks whether pkg was installed by pip
>     This is used not to display the upgrade message when pip is in fact
>     installed by system package manager, such as dnf on Fedora.
>     """
>     try:
>         dist = pkg_resources.get_distribution(pkg)
>         return ('pip' in get_installer(dist))
>     except pkg_resources.DistributionNotFound:
>         return False

Yep.

I think it should be `return "pip" == get_installer(dist)` -- the parenthesis is unnecessary and we want to match only when the name is "pip", not containing "pip". :)

Resolving patch:
diff --git a/src/pip/_internal/utils/outdated.py b/src/pip/_internal/utils/outdated.py
--- a/src/pip/_internal/utils/outdated.py
+++ b/src/pip/_internal/utils/outdated.py
@@ -13,6 +13,7 @@
 from pip._internal.utils.compat import WINDOWS
 from pip._internal.utils.filesystem import check_path_owner
 from pip._internal.utils.misc import ensure_dir, get_installed_version
+from pip._internal.utils.packaging import get_installer
 from pip._internal.utils.typing import MYPY_CHECK_RUNNING
 
 if MYPY_CHECK_RUNNING:
@@ -85,8 +86,7 @@ def was_installed_by_pip(pkg):
     """
     try:
         dist = pkg_resources.get_distribution(pkg)
-        return (dist.has_metadata('INSTALLER') and
-                'pip' in dist.get_metadata_lines('INSTALLER'))
+        return "pip" == get_installer(dist)
     except pkg_resources.DistributionNotFound:
         return False
 


Test patch: