gurudesh/pytracebugs huggingface dataset:
# Buggy code
def hrefs_by_time_range_datetime(self, start, end, account, color=""):
    """returns
    :type start: datetime.datetime
    :type end: datetime.datetime
    """
    start = time.mktime(start.timetuple())
    end = time.mktime(end.timetuple())
    sql_s = (
        "SELECT href FROM {0} WHERE "
        "dtstart >= ? AND dtstart <= ? OR "
        "dtend >= ? AND dtend <= ? OR "
        "dtstart <= ? AND dtend >= ?"
    ).format(account + "_dt")
    stuple = (start, end, start, end, start, end)
    result = self.sql_ex(sql_s, stuple)
    return [one[0] for one in result]


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def hrefs_by_time_range_datetime(self, start, end, account, color=""):
    """returns
    :type start: datetime.datetime
    :type end: datetime.datetime
    """
    self._check_account(account)
    start = time.mktime(start.timetuple())
    end = time.mktime(end.timetuple())
    sql_s = (
        "SELECT href FROM {0} WHERE "
        "dtstart >= ? AND dtstart <= ? OR "
        "dtend >= ? AND dtend <= ? OR "
        "dtstart <= ? AND dtend >= ?"
    ).format(account + "_dt")
    stuple = (start, end, start, end, start, end)
    result = self.sql_ex(sql_s, stuple)
    return [one[0] for one in result]
# Buggy code
def hrefs_by_time_range_date(self, start, end=None, account=None):
    if account is None:
        raise Exception("need to specify an account")
    strstart = start.strftime("%Y%m%d")
    if end is None:
        end = start + datetime.timedelta(days=1)
    strend = end.strftime("%Y%m%d")
    sql_s = (
        "SELECT href FROM {0} WHERE "
        "dtstart >= ? AND dtstart < ? OR "
        "dtend > ? AND dtend <= ? OR "
        "dtstart <= ? AND dtend > ? "
    ).format(account + "_d")
    stuple = (strstart, strend, strstart, strend, strstart, strend)
    result = self.sql_ex(sql_s, stuple)
    return [one[0] for one in result]


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def hrefs_by_time_range_date(self, start, end=None, account=None):
    self._check_account(account)
    if account is None:
        raise Exception("need to specify an account")
    strstart = start.strftime("%Y%m%d")
    if end is None:
        end = start + datetime.timedelta(days=1)
    strend = end.strftime("%Y%m%d")
    sql_s = (
        "SELECT href FROM {0} WHERE "
        "dtstart >= ? AND dtstart < ? OR "
        "dtend > ? AND dtend <= ? OR "
        "dtstart <= ? AND dtend > ? "
    ).format(account + "_d")
    stuple = (strstart, strend, strstart, strend, strstart, strend)
    result = self.sql_ex(sql_s, stuple)
    return [one[0] for one in result]
# Buggy code
def get_vevent_from_db(
    self,
    href,
    account,
    start=None,
    end=None,
    readonly=False,
    color=lambda x: x,
    unicode_symbols=True,
):
    """returns the Event matching href, if start and end are given, a
    specific Event from a Recursion set is returned, the Event as saved in
    the db

    All other parameters given to this function are handed over to the
    Event.
    """
    sql_s = "SELECT vevent, status, etag FROM {0} WHERE href=(?)".format(account + "_m")
    result = self.sql_ex(sql_s, (href,))
    return Event(
        result[0][0],
        local_tz=self.conf.default.local_timezone,
        default_tz=self.conf.default.default_timezone,
        start=start,
        end=end,
        color=color,
        href=href,
        account=account,
        status=result[0][1],
        readonly=readonly,
        etag=result[0][2],
        unicode_symbols=unicode_symbols,
    )


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def get_vevent_from_db(
    self,
    href,
    account,
    start=None,
    end=None,
    readonly=False,
    color=lambda x: x,
    unicode_symbols=True,
):
    """returns the Event matching href, if start and end are given, a
    specific Event from a Recursion set is returned, the Event as saved in
    the db

    All other parameters given to this function are handed over to the
    Event.
    """
    self._check_account(account)
    sql_s = "SELECT vevent, status, etag FROM {0} WHERE href=(?)".format(account + "_m")
    result = self.sql_ex(sql_s, (href,))
    return Event(
        result[0][0],
        local_tz=self.conf.default.local_timezone,
        default_tz=self.conf.default.default_timezone,
        start=start,
        end=end,
        color=color,
        href=href,
        account=account,
        status=result[0][1],
        readonly=readonly,
        etag=result[0][2],
        unicode_symbols=unicode_symbols,
    )
# Buggy code
def get_changed(self, account):
    """returns list of hrefs of locally edited vevents"""
    sql_s = "SELECT href FROM {0} WHERE status == (?)".format(account + "_m")
    result = self.sql_ex(sql_s, (CHANGED,))
    return [row[0] for row in result]


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def get_changed(self, account):
    """returns list of hrefs of locally edited vevents"""
    self._check_account(account)
    sql_s = "SELECT href FROM {0} WHERE status == (?)".format(account + "_m")
    result = self.sql_ex(sql_s, (CHANGED,))
    return [row[0] for row in result]
# Buggy code
def get_new(self, account):
    """returns list of hrefs of locally added vcards"""
    sql_s = "SELECT href FROM {0} WHERE status == (?)".format(account + "_m")
    result = self.sql_ex(sql_s, (NEW,))
    return [row[0] for row in result]


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def get_new(self, account):
    """returns list of hrefs of locally added vcards"""
    self._check_account(account)
    sql_s = "SELECT href FROM {0} WHERE status == (?)".format(account + "_m")
    result = self.sql_ex(sql_s, (NEW,))
    return [row[0] for row in result]
# Buggy code
def get_marked_delete(self, account):
    """returns list of tuples (hrefs, etags) of locally deleted vcards"""
    sql_s = "SELECT href, etag FROM {0} WHERE status == (?)".format(account + "_m")
    result = self.sql_ex(sql_s, (DELETED,))
    return result


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def get_marked_delete(self, account):
    """returns list of tuples (hrefs, etags) of locally deleted vcards"""
    self._check_account(account)
    sql_s = "SELECT href, etag FROM {0} WHERE status == (?)".format(account + "_m")
    result = self.sql_ex(sql_s, (DELETED,))
    return result
# Buggy code
def mark_delete(self, href, account):
    """marks the entry as to be deleted on server on next sync"""
    sql_s = "UPDATE {0} SET STATUS = ? WHERE href = ?".format(account + "_m")
    self.sql_ex(
        sql_s,
        (
            DELETED,
            href,
        ),
    )


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def mark_delete(self, href, account):
    """marks the entry as to be deleted on server on next sync"""
    self._check_account(account)
    sql_s = "UPDATE {0} SET STATUS = ? WHERE href = ?".format(account + "_m")
    self.sql_ex(
        sql_s,
        (
            DELETED,
            href,
        ),
    )
# Buggy code
def set_status(self, href, status, account):
    """sets the status of vcard"""
    sql_s = "UPDATE {0} SET STATUS = ? WHERE href = ?".format(account + "_m")
    self.sql_ex(
        sql_s,
        (
            status,
            href,
        ),
    )


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def set_status(self, href, status, account):
    """sets the status of vcard"""
    self._check_account(account)
    sql_s = "UPDATE {0} SET STATUS = ? WHERE href = ?".format(account + "_m")
    self.sql_ex(
        sql_s,
        (
            status,
            href,
        ),
    )
# Buggy code
def reset_flag(self, href, account):
    """
    resets the status for a given href to 0 (=not edited locally)
    """
    sql_s = "UPDATE {0} SET status = ? WHERE href = ?".format(account + "_m")
    self.sql_ex(
        sql_s,
        (
            OK,
            href,
        ),
    )


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def reset_flag(self, href, account):
    """
    resets the status for a given href to 0 (=not edited locally)
    """
    self._check_account(account)
    sql_s = "UPDATE {0} SET status = ? WHERE href = ?".format(account + "_m")
    self.sql_ex(
        sql_s,
        (
            OK,
            href,
        ),
    )
# Buggy code
def get_status(self, href, account):
    """
    gets the status of the event associated with href in `account`
    """
    sql_s = "SELECT status FROM {0} WHERE href = (?)".format(account + "_m")
    return self.sql_ex(sql_s, (href,))[0][0]


# Traceback (sqlite3.OperationalError)
Traceback (most recent call last):
File "/home/catern/src/khal/virt/bin/khal", line 5, in <module>
pkg_resources.run_script('khal==0.1.0.dev', 'khal')
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 1462, in run_script
exec_(script_code, namespace, namespace)
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/pkg_resources.py", line 41, in exec_
exec("""exec code in globs, locs""")
File "<string>", line 1, in <module>
File "/home/catern/src/khal/virt/lib/python2.7/site-packages/khal-0.1.0.dev-py2.7.egg/EGG-INFO/scripts/khal", line 72, in <module>

File "build/bdist.linux-x86_64/egg/khal/controllers.py", line 178, in __init__
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 440, in get_allday_range
File "build/bdist.linux-x86_64/egg/khal/backend.py", line 164, in sql_ex
sqlite3.OperationalError: no such table: simple_d

# Fixed code
def get_status(self, href, account):
    """
    gets the status of the event associated with href in `account`
    """
    self._check_account(account)
    sql_s = "SELECT status FROM {0} WHERE href = (?)".format(account + "_m")
    return self.sql_ex(sql_s, (href,))[0][0]
# Buggy code
def get_document_by_id(
    self, id: UUID, index: Optional[str] = None
) -> Optional[Document]:
    pass


# Traceback (ValueError)
07/31/2020 16:12:59 - INFO - haystack.retriever.dpr_utils -   Loading saved model from models/dpr/checkpoint/retriever/single/nq/bert-base-encoder.cp
07/31/2020 16:12:59 - INFO - haystack.retriever.dense -   Loaded encoder params:  {'do_lower_case': True, 'pretrained_model_cfg': 'bert-base-uncased', 'encoder_model_type': 'hf_bert', 'pretrained_file': None, 'projection_dim': 0, 'sequence_length': 256}
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - elasticsearch -   POST https://df4bc7e5f2a54314ac10223dd343fe94.us-central1.gcp.cloud.es.io:9243/document/_search?scroll=5m&amp;size=1000 [status:200 request:0.139s]
---------------------------------------------------------------------------
ValueError                                Traceback (most recent call last)
<ipython-input-22-9372aaabee19> in <module>()
11 # At query time, we only need to embed the query and compare it the existing doc embeddings which is very fast.
12
---> 13 document_store.update_embeddings(retriever)
14
15 # ES retreivar

5 frames
/usr/lib/python3.6/uuid.py in __init__(self, hex, bytes, bytes_le, fields, int, version)
138             hex = hex.strip('{}').replace('-', '')
139             if len(hex) != 32:
--> 140                 raise ValueError('badly formed hexadecimal UUID string')
141             int = int_(hex, 16)
142         if bytes_le is not None:

**ValueError: badly formed hexadecimal UUID string**

# Fixed code
def get_document_by_id(
    self, id: str, index: Optional[str] = None
) -> Optional[Document]:
    pass
# Buggy code
def get_document_by_id(self, id: Union[UUID, str], index=None) -> Optional[Document]:
    if index is None:
        index = self.index
    query = {"query": {"ids": {"values": [id]}}}
    result = self.client.search(index=index, body=query)["hits"]["hits"]

    document = self._convert_es_hit_to_document(result[0]) if result else None
    return document


# Traceback (ValueError)
07/31/2020 16:12:59 - INFO - haystack.retriever.dpr_utils -   Loading saved model from models/dpr/checkpoint/retriever/single/nq/bert-base-encoder.cp
07/31/2020 16:12:59 - INFO - haystack.retriever.dense -   Loaded encoder params:  {'do_lower_case': True, 'pretrained_model_cfg': 'bert-base-uncased', 'encoder_model_type': 'hf_bert', 'pretrained_file': None, 'projection_dim': 0, 'sequence_length': 256}
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - elasticsearch -   POST https://df4bc7e5f2a54314ac10223dd343fe94.us-central1.gcp.cloud.es.io:9243/document/_search?scroll=5m&amp;size=1000 [status:200 request:0.139s]
---------------------------------------------------------------------------
ValueError                                Traceback (most recent call last)
<ipython-input-22-9372aaabee19> in <module>()
11 # At query time, we only need to embed the query and compare it the existing doc embeddings which is very fast.
12
---> 13 document_store.update_embeddings(retriever)
14
15 # ES retreivar

5 frames
/usr/lib/python3.6/uuid.py in __init__(self, hex, bytes, bytes_le, fields, int, version)
138             hex = hex.strip('{}').replace('-', '')
139             if len(hex) != 32:
--> 140                 raise ValueError('badly formed hexadecimal UUID string')
141             int = int_(hex, 16)
142         if bytes_le is not None:

**ValueError: badly formed hexadecimal UUID string**

# Fixed code
def get_document_by_id(self, id: str, index=None) -> Optional[Document]:
    if index is None:
        index = self.index
    query = {"query": {"ids": {"values": [id]}}}
    result = self.client.search(index=index, body=query)["hits"]["hits"]

    document = self._convert_es_hit_to_document(result[0]) if result else None
    return document
# Buggy code
def write_labels(
    self, labels: Union[List[dict], List[Label]], index: Optional[str] = None
):
    index = index or self.label_index
    label_objects = [Label.from_dict(l) if isinstance(l, dict) else l for l in labels]

    for label in label_objects:
        label_id = uuid.uuid4()
        self.indexes[index][label_id] = label


# Traceback (ValueError)
07/31/2020 16:12:59 - INFO - haystack.retriever.dpr_utils -   Loading saved model from models/dpr/checkpoint/retriever/single/nq/bert-base-encoder.cp
07/31/2020 16:12:59 - INFO - haystack.retriever.dense -   Loaded encoder params:  {'do_lower_case': True, 'pretrained_model_cfg': 'bert-base-uncased', 'encoder_model_type': 'hf_bert', 'pretrained_file': None, 'projection_dim': 0, 'sequence_length': 256}
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - elasticsearch -   POST https://df4bc7e5f2a54314ac10223dd343fe94.us-central1.gcp.cloud.es.io:9243/document/_search?scroll=5m&amp;size=1000 [status:200 request:0.139s]
---------------------------------------------------------------------------
ValueError                                Traceback (most recent call last)
<ipython-input-22-9372aaabee19> in <module>()
11 # At query time, we only need to embed the query and compare it the existing doc embeddings which is very fast.
12
---> 13 document_store.update_embeddings(retriever)
14
15 # ES retreivar

5 frames
/usr/lib/python3.6/uuid.py in __init__(self, hex, bytes, bytes_le, fields, int, version)
138             hex = hex.strip('{}').replace('-', '')
139             if len(hex) != 32:
--> 140                 raise ValueError('badly formed hexadecimal UUID string')
141             int = int_(hex, 16)
142         if bytes_le is not None:

**ValueError: badly formed hexadecimal UUID string**

# Fixed code
def write_labels(
    self, labels: Union[List[dict], List[Label]], index: Optional[str] = None
):
    index = index or self.label_index
    label_objects = [Label.from_dict(l) if isinstance(l, dict) else l for l in labels]

    for label in label_objects:
        label_id = str(uuid4())
        self.indexes[index][label_id] = label
# Buggy code
def get_document_by_id(
    self, id: Union[str, UUID], index: Optional[str] = None
) -> Document:
    index = index or self.index
    return self.indexes[index][id]


# Traceback (ValueError)
07/31/2020 16:12:59 - INFO - haystack.retriever.dpr_utils -   Loading saved model from models/dpr/checkpoint/retriever/single/nq/bert-base-encoder.cp
07/31/2020 16:12:59 - INFO - haystack.retriever.dense -   Loaded encoder params:  {'do_lower_case': True, 'pretrained_model_cfg': 'bert-base-uncased', 'encoder_model_type': 'hf_bert', 'pretrained_file': None, 'projection_dim': 0, 'sequence_length': 256}
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - elasticsearch -   POST https://df4bc7e5f2a54314ac10223dd343fe94.us-central1.gcp.cloud.es.io:9243/document/_search?scroll=5m&amp;size=1000 [status:200 request:0.139s]
---------------------------------------------------------------------------
ValueError                                Traceback (most recent call last)
<ipython-input-22-9372aaabee19> in <module>()
11 # At query time, we only need to embed the query and compare it the existing doc embeddings which is very fast.
12
---> 13 document_store.update_embeddings(retriever)
14
15 # ES retreivar

5 frames
/usr/lib/python3.6/uuid.py in __init__(self, hex, bytes, bytes_le, fields, int, version)
138             hex = hex.strip('{}').replace('-', '')
139             if len(hex) != 32:
--> 140                 raise ValueError('badly formed hexadecimal UUID string')
141             int = int_(hex, 16)
142         if bytes_le is not None:

**ValueError: badly formed hexadecimal UUID string**

# Fixed code
def get_document_by_id(self, id: str, index: Optional[str] = None) -> Document:
    index = index or self.index
    return self.indexes[index][id]
# Buggy code
def get_document_by_id(self, id: UUID, index=None) -> Optional[Document]:
    index = index or self.index
    document_row = self.session.query(DocumentORM).filter_by(index=index, id=id).first()
    document = document_row or self._convert_sql_row_to_document(document_row)
    return document


# Traceback (ValueError)
07/31/2020 16:12:59 - INFO - haystack.retriever.dpr_utils -   Loading saved model from models/dpr/checkpoint/retriever/single/nq/bert-base-encoder.cp
07/31/2020 16:12:59 - INFO - haystack.retriever.dense -   Loaded encoder params:  {'do_lower_case': True, 'pretrained_model_cfg': 'bert-base-uncased', 'encoder_model_type': 'hf_bert', 'pretrained_file': None, 'projection_dim': 0, 'sequence_length': 256}
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - elasticsearch -   POST https://df4bc7e5f2a54314ac10223dd343fe94.us-central1.gcp.cloud.es.io:9243/document/_search?scroll=5m&amp;size=1000 [status:200 request:0.139s]
---------------------------------------------------------------------------
ValueError                                Traceback (most recent call last)
<ipython-input-22-9372aaabee19> in <module>()
11 # At query time, we only need to embed the query and compare it the existing doc embeddings which is very fast.
12
---> 13 document_store.update_embeddings(retriever)
14
15 # ES retreivar

5 frames
/usr/lib/python3.6/uuid.py in __init__(self, hex, bytes, bytes_le, fields, int, version)
138             hex = hex.strip('{}').replace('-', '')
139             if len(hex) != 32:
--> 140                 raise ValueError('badly formed hexadecimal UUID string')
141             int = int_(hex, 16)
142         if bytes_le is not None:

**ValueError: badly formed hexadecimal UUID string**

# Fixed code
def get_document_by_id(self, id: str, index=None) -> Optional[Document]:
    index = index or self.index
    document_row = self.session.query(DocumentORM).filter_by(index=index, id=id).first()
    document = document_row or self._convert_sql_row_to_document(document_row)
    return document
# Buggy code
def write_labels(self, labels, index=None):
    labels = [Label.from_dict(l) if isinstance(l, dict) else l for l in labels]
    index = index or self.index
    for label in labels:
        label_orm = LabelORM(
            document_id=label.document_id,
            no_answer=label.no_answer,
            origin=label.origin,
            question=label.question,
            is_correct_answer=label.is_correct_answer,
            is_correct_document=label.is_correct_document,
            answer=label.answer,
            offset_start_in_doc=label.offset_start_in_doc,
            model_id=label.model_id,
            index=index,
        )
        self.session.add(label_orm)
    self.session.commit()


# Traceback (ValueError)
07/31/2020 16:12:59 - INFO - haystack.retriever.dpr_utils -   Loading saved model from models/dpr/checkpoint/retriever/single/nq/bert-base-encoder.cp
07/31/2020 16:12:59 - INFO - haystack.retriever.dense -   Loaded encoder params:  {'do_lower_case': True, 'pretrained_model_cfg': 'bert-base-uncased', 'encoder_model_type': 'hf_bert', 'pretrained_file': None, 'projection_dim': 0, 'sequence_length': 256}
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - haystack.retriever.dense -   Loading saved model state ...
07/31/2020 16:13:09 - INFO - elasticsearch -   POST https://df4bc7e5f2a54314ac10223dd343fe94.us-central1.gcp.cloud.es.io:9243/document/_search?scroll=5m&amp;size=1000 [status:200 request:0.139s]
---------------------------------------------------------------------------
ValueError                                Traceback (most recent call last)
<ipython-input-22-9372aaabee19> in <module>()
11 # At query time, we only need to embed the query and compare it the existing doc embeddings which is very fast.
12
---> 13 document_store.update_embeddings(retriever)
14
15 # ES retreivar

5 frames
/usr/lib/python3.6/uuid.py in __init__(self, hex, bytes, bytes_le, fields, int, version)
138             hex = hex.strip('{}').replace('-', '')
139             if len(hex) != 32:
--> 140                 raise ValueError('badly formed hexadecimal UUID string')
141             int = int_(hex, 16)
142         if bytes_le is not None:

**ValueError: badly formed hexadecimal UUID string**

# Fixed code
def write_labels(self, labels, index=None):
    labels = [Label.from_dict(l) if isinstance(l, dict) else l for l in labels]
    index = index or self.index
    for label in labels:
        label_orm = LabelORM(
            id=str(uuid4()),
            document_id=label.document_id,
            no_answer=label.no_answer,
            origin=label.origin,
            question=label.question,
            is_correct_answer=label.is_correct_answer,
            is_correct_document=label.is_correct_document,
            answer=label.answer,
            offset_start_in_doc=label.offset_start_in_doc,
            model_id=label.model_id,
            index=index,
        )
        self.session.add(label_orm)
    self.session.commit()
# Buggy code
def get_root() -> str:
    # Git 2.25 introduced a change to "rev-parse --show-toplevel" that exposed
    # underlying volumes for Windows drives mapped with SUBST.  We use
    # "rev-parse --show-cdup" to get the appropriate path, but must perform
    # an extra check to see if we are in the .git directory.
    try:
        root = os.path.realpath(
            cmd_output("git", "rev-parse", "--show-cdup")[1].strip(),
        )
        git_dir = os.path.realpath(get_git_dir())
    except CalledProcessError:
        raise FatalError(
            "git failed. Is it installed, and are you in a Git repository directory?",
        )
    if os.path.commonpath((root, git_dir)) == git_dir:
        raise FatalError(
            "git toplevel unexpectedly empty! make sure you are not "
            "inside the `.git` directory of your repository.",
        )
    return root


# Traceback (pre_commit.errors.FatalError)
Traceback (most recent call last):
File "/home/vampas/.dotfiles/.ext/pyenv/versions/3.6.8/envs/SaltPriv-3.6/lib/python3.6/site-packages/pre_commit/error_handler.py", line 65, in error_handler
yield
File "/home/vampas/.dotfiles/.ext/pyenv/versions/3.6.8/envs/SaltPriv-3.6/lib/python3.6/site-packages/pre_commit/main.py", line 330, in main
_adjust_args_and_chdir(args)
File "/home/vampas/.dotfiles/.ext/pyenv/versions/3.6.8/envs/SaltPriv-3.6/lib/python3.6/site-packages/pre_commit/main.py", line 147, in _adjust_args_and_chdir
toplevel = git.get_root()
File "/home/vampas/.dotfiles/.ext/pyenv/versions/3.6.8/envs/SaltPriv-3.6/lib/python3.6/site-packages/pre_commit/git.py", line 66, in get_root
'git toplevel unexpectedly empty! make sure you are not '
pre_commit.errors.FatalError: git toplevel unexpectedly empty! make sure you are not inside the `.git` directory of your repository.

# Fixed code
def get_root() -> str:
    # Git 2.25 introduced a change to "rev-parse --show-toplevel" that exposed
    # underlying volumes for Windows drives mapped with SUBST.  We use
    # "rev-parse --show-cdup" to get the appropriate path, but must perform
    # an extra check to see if we are in the .git directory.
    try:
        root = os.path.realpath(
            cmd_output("git", "rev-parse", "--show-cdup")[1].strip(),
        )
        git_dir = os.path.realpath(get_git_dir())
    except CalledProcessError:
        raise FatalError(
            "git failed. Is it installed, and are you in a Git repository directory?",
        )
    if os.path.samefile(root, git_dir):
        raise FatalError(
            "git toplevel unexpectedly empty! make sure you are not "
            "inside the `.git` directory of your repository.",
        )
    return root
# Buggy code
def get_default_version() -> str:
    # nodeenv does not yet support `-n system` on windows
    if sys.platform == "win32":
        return C.DEFAULT
    # if node is already installed, we can save a bunch of setup time by
    # using the installed version
    elif all(parse_shebang.find_executable(exe) for exe in ("node", "npm")):
        return "system"
    else:
        return C.DEFAULT


# Traceback (FileNotFoundError)
Traceback (most recent call last):
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/error_handler.py", line 63, in error_handler
yield
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/main.py", line 390, in main
return run(args.config, store, args)
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/commands/run.py", line 388, in run
install_hook_envs(hooks, store)
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/repository.py", line 206, in install_hook_envs
_hook_install(hook)
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/repository.py", line 92, in _hook_install
_write_state(hook.prefix, venv, _state(hook.additional_dependencies))
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/repository.py", line 48, in _write_state
with open(staging, 'w') as state_file:
FileNotFoundError: [Errno 2] No such file or directory: '/Users/adithyabalaji/.cache/pre-commit/repo09b5y8iv/rbenv-system/.install_state_v1staging'

# Fixed code
def get_default_version() -> str:
    # nodeenv does not yet support `-n system` on windows
    if sys.platform == "win32":
        return C.DEFAULT
    # if node is already installed, we can save a bunch of setup time by
    # using the installed version
    elif all(helpers.exe_exists(exe) for exe in ("node", "npm")):
        return "system"
    else:
        return C.DEFAULT
# Buggy code
def get_default_version() -> str:
    if all(parse_shebang.find_executable(exe) for exe in ("ruby", "gem")):
        return "system"
    else:
        return C.DEFAULT


# Traceback (FileNotFoundError)
Traceback (most recent call last):
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/error_handler.py", line 63, in error_handler
yield
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/main.py", line 390, in main
return run(args.config, store, args)
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/commands/run.py", line 388, in run
install_hook_envs(hooks, store)
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/repository.py", line 206, in install_hook_envs
_hook_install(hook)
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/repository.py", line 92, in _hook_install
_write_state(hook.prefix, venv, _state(hook.additional_dependencies))
File "/usr/local/Cellar/pre-commit/2.7.1_1/libexec/lib/python3.9/site-packages/pre_commit/repository.py", line 48, in _write_state
with open(staging, 'w') as state_file:
FileNotFoundError: [Errno 2] No such file or directory: '/Users/adithyabalaji/.cache/pre-commit/repo09b5y8iv/rbenv-system/.install_state_v1staging'

# Fixed code
def get_default_version() -> str:
    if all(helpers.exe_exists(exe) for exe in ("ruby", "gem")):
        return "system"
    else:
        return C.DEFAULT
# Buggy code
def _find_by_py_launcher(
    version: str,
) -> Optional[str]:  # pragma: no cover (windows only)
    if version.startswith("python"):
        num = version[len("python") :]
        try:
            cmd = ("py", f"-{num}", "-c", "import sys; print(sys.executable)")
            return cmd_output(*cmd)[1].strip()
        except CalledProcessError:
            pass
    return None


# Traceback (UnicodeDecodeError)
Traceback (most recent call last):
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\error_handler.py", line 56, in error_handler
yield
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\main.py", line 372, in main
args=args.rest[1:],
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\commands\hook_impl.py", line 217, in hook_impl
return retv | run(config, store, ns)
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\commands\run.py", line 357, in run
for hook in all_hooks(config, store)
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\repository.py", line 206, in all_hooks
for repo in root_config['repos']
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\repository.py", line 207, in <genexpr>
for hook in _repository_hooks(repo, store, root_config)
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\repository.py", line 182, in _repository_hooks
return _cloned_repository_hooks(repo_config, store, root_config)
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\repository.py", line 162, in _cloned_repository_hooks
for hook in repo_config['hooks']
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\repository.py", line 162, in <listcomp>
for hook in repo_config['hooks']
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\repository.py", line 110, in _hook
ret['language_version'] = languages[lang].get_default_version()
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\languages\python.py", line 113, in get_default_version
if _find_by_py_launcher(exe):
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\languages\python.py", line 72, in _find_by_py_launcher
return cmd_output(*cmd)[1].strip()
File "c:\program files\git\dev\core\venv\lib\site-packages\pre_commit\util.py", line 164, in cmd_output
stdout = stdout_b.decode() if stdout_b is not None else None
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xc0 in position 9: invalid start byte

# Fixed code
def _find_by_py_launcher(
    version: str,
) -> Optional[str]:  # pragma: no cover (windows only)
    if version.startswith("python"):
        num = version[len("python") :]
        cmd = ("py", f"-{num}", "-c", "import sys; print(sys.executable)")
        env = dict(os.environ, PYTHONIOENCODING="UTF-8")
        try:
            return cmd_output(*cmd, env=env)[1].strip()
        except CalledProcessError:
            pass
    return None
# Buggy code
def migrate_config(config_file: str, quiet: bool = False) -> int:
    with open(config_file) as f:
        orig_contents = contents = f.read()

    contents = _migrate_map(contents)
    contents = _migrate_sha_to_rev(contents)

    if contents != orig_contents:
        with open(config_file, "w") as f:
            f.write(contents)

        print("Configuration has been migrated.")
    elif not quiet:
        print("Configuration is already migrated.")
    return 0


# Traceback (yaml.scanner.ScannerError)
Traceback (most recent call last):
File "/home/ryan/.local/pipx/venvs/pre-commit/lib/python3.8/site-packages/pre_commit/error_handler.py", line 56, in error_handler
yield
File "/home/ryan/.local/pipx/venvs/pre-commit/lib/python3.8/site-packages/pre_commit/main.py", line 354, in main
return autoupdate(
File "/home/ryan/.local/pipx/venvs/pre-commit/lib/python3.8/site-packages/pre_commit/commands/autoupdate.py", line 141, in autoupdate
migrate_config(config_file, quiet=True)
File "/home/ryan/.local/pipx/venvs/pre-commit/lib/python3.8/site-packages/pre_commit/commands/migrate_config.py", line 49, in migrate_config
contents = _migrate_map(contents)
File "/home/ryan/.local/pipx/venvs/pre-commit/lib/python3.8/site-packages/pre_commit/commands/migrate_config.py", line 28, in _migrate_map
if isinstance(yaml_load(contents), list):
File "/home/ryan/.local/pipx/venvs/pre-commit/lib/python3.8/site-packages/yaml/__init__.py", line 114, in load
return loader.get_single_data()
File "/home/ryan/.local/pipx/venvs/pre-commit/lib/python3.8/site-packages/yaml/constructor.py", line 49, in get_single_data
node = self.get_single_node()
File "ext/_yaml.pyx", line 707, in _yaml.CParser.get_single_node
File "ext/_yaml.pyx", line 726, in _yaml.CParser._compose_document
File "ext/_yaml.pyx", line 905, in _yaml.CParser._parse_next_event
yaml.scanner.ScannerError: mapping values are not allowed in this context
in "<unicode string>", line 2, column 6

# Fixed code
def migrate_config(config_file: str, quiet: bool = False) -> int:
    # ensure that the configuration is a valid pre-commit configuration
    load_config(config_file)

    with open(config_file) as f:
        orig_contents = contents = f.read()

    contents = _migrate_map(contents)
    contents = _migrate_sha_to_rev(contents)

    if contents != orig_contents:
        with open(config_file, "w") as f:
            f.write(contents)

        print("Configuration has been migrated.")
    elif not quiet:
        print("Configuration is already migrated.")
    return 0
# Buggy code
def install_environment(
    prefix: Prefix,
    version: str,
    additional_dependencies: Sequence[str],
) -> None:
    additional_dependencies = tuple(additional_dependencies)
    directory = helpers.environment_dir(_dir, version)

    env_dir = prefix.path(directory)
    with clean_path_on_failure(env_dir):
        if version != C.DEFAULT:
            python = norm_version(version)
        else:
            python = os.path.realpath(sys.executable)
        _make_venv(env_dir, python)
        with in_env(prefix, version):
            helpers.run_setup_cmd(
                prefix,
                ("pip", "install", ".") + additional_dependencies,
            )


# Traceback (pre_commit.util.CalledProcessError)
Traceback (most recent call last):
File "c:\program files\python37\lib\site-packages\pre_commit\error_handler.py", line 56, in error_handler
yield
File "c:\program files\python37\lib\site-packages\pre_commit\main.py", line 372, in main
args=args.rest[1:],
File "c:\program files\python37\lib\site-packages\pre_commit\commands\hook_impl.py", line 187, in hook_impl
return retv | run(config, store, ns)
File "c:\program files\python37\lib\site-packages\pre_commit\commands\run.py", line 355, in run
install_hook_envs(hooks, store)
File "c:\program files\python37\lib\site-packages\pre_commit\repository.py", line 200, in install_hook_envs
_hook_install(hook)
File "c:\program files\python37\lib\site-packages\pre_commit\repository.py", line 83, in _hook_install
hook.prefix, hook.language_version, hook.additional_dependencies,
File "c:\program files\python37\lib\site-packages\pre_commit\languages\python.py", line 197, in install_environment
prefix, ('pip', 'install', '.') + additional_dependencies,
File "c:\program files\python37\lib\site-packages\pre_commit\languages\helpers.py", line 25, in run_setup_cmd
cmd_output_b(*cmd, cwd=prefix.prefix_dir)
File "c:\program files\python37\lib\site-packages\pre_commit\util.py", line 156, in cmd_output_b
raise CalledProcessError(returncode, cmd, retcode, stdout_b, stderr_b)
pre_commit.util.CalledProcessError: <unprintable CalledProcessError object>

# Fixed code
def install_environment(
    prefix: Prefix,
    version: str,
    additional_dependencies: Sequence[str],
) -> None:
    directory = helpers.environment_dir(_dir, version)
    install = ("python", "-mpip", "install", ".", *additional_dependencies)

    env_dir = prefix.path(directory)
    with clean_path_on_failure(env_dir):
        if version != C.DEFAULT:
            python = norm_version(version)
        else:
            python = os.path.realpath(sys.executable)
        _make_venv(env_dir, python)
        with in_env(prefix, version):
            helpers.run_setup_cmd(prefix, install)