instance_id stringlengths 10 57 | file_changes listlengths 1 15 | repo stringlengths 7 53 | base_commit stringlengths 40 40 | problem_statement stringlengths 11 52.5k | patch stringlengths 251 7.06M |
|---|---|---|---|---|---|
gorakhargosh__watchdog-747 | [
{
"changes": {
"added_entities": [
"src/watchdog/events.py:FileSystemEventHandler.on_closed"
],
"added_modules": [
"src/watchdog/events.py:FileClosedEvent"
],
"edited_entities": [
"src/watchdog/events.py:FileSystemEventHandler.dispatch"
],
"edite... | gorakhargosh/watchdog | 847a059ae717424baea81a949c7726fc3520bb8a | Modifed event triggered twice
if I copy and paste a file on OSX lion
it triggered created event once and modified event twice
should it be just trigger once modified event?
`
INFO:root:Created file: /Users/ouyangjichao/BoxSync/rename/testwatchdog.py
INFO:root:Modified file: /Users/ouyangjichao/BoxSync/rename/testwatch... | diff --git a/changelog.rst b/changelog.rst
index 167f5cb..52943e5 100644
--- a/changelog.rst
+++ b/changelog.rst
@@ -9,7 +9,8 @@ Changelog
202x-xx-xx • `full history <https://github.com/gorakhargosh/watchdog/compare/v1.0.2...master>`__
- Avoid deprecated ``PyEval_InitThreads`` on Python 3.7+ (`#746 <https://github.... |
gorakhargosh__watchdog-760 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/watchdog/observers/inotify.py:InotifyEmitter.on_thread_stop",
"src/watchdog/observers/inotify.py:InotifyEmitter.queue_events"
],
"edited_modules": [
"src/watchdog/observe... | gorakhargosh/watchdog | 72a254502960cd347555e593ef0694f31bc29d7e | Linux Bad File Descriptor when watched directory is removed
Hello
I tested watchdog on Linux (Ubuntu) and Windows (Win10).
### **Versions**
**Linux::**
```
Python 3.6.9
watchdog-1.0.2
```
**Windows**
```
Python 3.7.9
watchdog-1.0.2
```
### **Test scenario is as below:**
1. Create directory X
2. Wat... | diff --git a/changelog.rst b/changelog.rst
index 61e2b48..b47c5d8 100644
--- a/changelog.rst
+++ b/changelog.rst
@@ -10,6 +10,7 @@ Changelog
- Avoid deprecated ``PyEval_InitThreads`` on Python 3.7+ (`#746 <https://github.com/gorakhargosh/watchdog/pull/746>`_)
- [inotify] Add support for ``IN_CLOSE_WRITE`` events. A... |
gorakhargosh__watchdog-880 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/watchdog/watchmedo.py:command"
],
"edited_modules": [
"src/watchdog/watchmedo.py:command"
]
},
"file": "src/watchdog/watchmedo.py"
}
] | gorakhargosh/watchdog | 77e1f4668bc42b4a8706b181d882fd68c05ab8b9 | Watchmedo.tricks_from broken after latest upgrade
Hi,
we upgraded to latest version of the package and our tools are now crashing when invoking watchmedo.tricks_from method.
The exception:
```
File "C:\Program Files\JetBrains\PyCharm 2021.3.2\plugins\python\helpers\pydev\pydevd.py", line 1483, in _exec
... | diff --git a/changelog.rst b/changelog.rst
index cfea69a..0b12e35 100644
--- a/changelog.rst
+++ b/changelog.rst
@@ -10,6 +10,7 @@ Changelog
- Eliminate timeout in waiting on event queue. (`#861 <https://github.com/gorakhargosh/watchdog/pull/861>`_)
- [inotify] Fix ``not`` equality implementation for ``InotifyEvent... |
gorakhargosh__watchdog-886 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "src/watchdog/watchmedo.py"
}
] | gorakhargosh/watchdog | e57ec02154075e25d59ee09c392c94065e12c52d | watchmedo - argparse for --kill-after needs to be a float
If you set --kill-after argument on watchmedo then it will fail as the argparse configuration is not set to a float.
It needs to be:
```
argument('--kill-after',
dest='kill_after',
default=10.0,
... | diff --git a/changelog.rst b/changelog.rst
index ffc8fb0..900a55d 100644
--- a/changelog.rst
+++ b/changelog.rst
@@ -8,8 +8,8 @@ Changelog
2022-xx-xx • `full history <https://github.com/gorakhargosh/watchdog/compare/v2.1.7...master>`__
--
-- Thanks to our beloved contributors: @
+- [watchmedo] Fix broken parsing ... |
gorakhargosh__watchdog-889 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": [
"src/watchdog/tricks/__init__.py:LoggerTrick",
"src/watchdog/tricks/__init__.py:AutoRestartTrick"
]
},
"file": "src/watchdog/tricks/__init__.py"
},
... | gorakhargosh/watchdog | 4baea3649a0ff86a499a50d37d530a5b147ee029 | Suppress watchmedo on_any_event log messages
When using watchmedo auto-restart how can I suppress all the event messages logged to the console? It's noise I do not want to see.
Thanks.
Eg:
```shell
$ watchmedo auto-restart test.sh
on_any_event(self=<watchdog.tricks.AutoRestartTrick object at 0xb634ab30>, even... | diff --git a/changelog.rst b/changelog.rst
index 33f8edb..71765ad 100644
--- a/changelog.rst
+++ b/changelog.rst
@@ -13,6 +13,7 @@ Changelog
- [watchmedo] Fix broken parsing of boolean arguments. (`#855 <https://github.com/gorakhargosh/watchdog/issues/855>`_)
- [watchmedo] Fix broken parsing of commands from ``auto-r... |
gorakhargosh__watchdog-897 | [
{
"changes": {
"added_entities": [
"src/watchdog/tricks/__init__.py:ShellCommandTrick.is_process_running"
],
"added_modules": null,
"edited_entities": [
"src/watchdog/tricks/__init__.py:ShellCommandTrick.on_any_event",
"src/watchdog/tricks/__init__.py:ShellCommand... | gorakhargosh/watchdog | fa806f1bdd838de1ebf42916e9f5e21b8688d8e2 | Without `--wait`, shell subprocesses can deadlock / are not reaped
For example:
```
watchmedo shell-command -c 'cat' /some/file
```
The relevant code:
```
self.process = subprocess.Popen(command, shell=True)
if self.wait_for_process: ... | diff --git a/changelog.rst b/changelog.rst
index 747645c..7549fec 100644
--- a/changelog.rst
+++ b/changelog.rst
@@ -9,7 +9,8 @@ Unreleased
2022-xx-xx • `full history <https://github.com/gorakhargosh/watchdog/compare/v2.1.8...HEAD>`__
- [fsevents] Fix flakey test to assert that there are no errors when stopping the... |
gotcha__ipdb-224 | [
{
"changes": {
"added_entities": [
"ipdb/__main__.py:_get_debugger_cls"
],
"added_modules": [
"ipdb/__main__.py:_get_debugger_cls"
],
"edited_entities": [
"ipdb/__main__.py:_init_pdb"
],
"edited_modules": [
"ipdb/__main__.py:_init_pdb"
... | gotcha/ipdb | 5bb1e869d7b01ca6f5891d297ae66907614ee67a | Importing ipdb initializes IPython
Currently, merely importing `ipdb` causes it to initialize IPython. In turn, among other things, IPython installs its excepthook. Therefore on programs that import `ipdb`, the default exception behaviour is already wrapped with IPython's, even when both ipdb and IPython aren't run.
... | diff --git a/ipdb/__main__.py b/ipdb/__main__.py
index 8792b73..52e26e3 100644
--- a/ipdb/__main__.py
+++ b/ipdb/__main__.py
@@ -22,34 +22,36 @@ except:
import ConfigParser as configparser
-shell = get_ipython()
-if shell is None:
- # Not inside IPython
- # Build a terminal app in order to force ipython ... |
gotcha__ipdb-226 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "ipdb/__init__.py"
},
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": ... | gotcha/ipdb | 6694611c9417a9afc28c86f5ffe546d4397c95a7 | Support launch_ipdb_on_exception as a function decorator
For some time I have used this in my personal debug tools:
```python
import ipdb
class Decontext(object):
"""
Makes a context manager also act as decorator
"""
def __init__(self, context_manager):
self._cm = context_manager
... | diff --git a/HISTORY.txt b/HISTORY.txt
index 1d45eba..7bd94f2 100644
--- a/HISTORY.txt
+++ b/HISTORY.txt
@@ -4,7 +4,8 @@ Changelog
0.13.8 (unreleased)
-------------------
-- Nothing changed yet.
+- Add the convenience function ``iex()``.
+ [alanbernstein]
0.13.7 (2021-03-16)
diff --git a/README.rst b/README.r... |
gouline__dbt-metabase-158 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"dbtmetabase/parsers/dbt_manifest.py:DbtManifestReader._read_model"
],
"edited_modules": [
"dbtmetabase/parsers/dbt_manifest.py:DbtManifestReader"
]
},
"file": "dbtmetab... | gouline/dbt-metabase | 1b8af327f46bf34c3f79d6c1890e6ce0d226c46c | Relationship tests read incorrectly to determine fk_target_table
The tool appears to read all relationship tests, both outgoing (the fk_target_table is a model **not** currently being read), as well as incoming (the fk_target_table **is** the model currently being read).
If table A is the table currently being read b... | diff --git a/dbtmetabase/parsers/dbt_manifest.py b/dbtmetabase/parsers/dbt_manifest.py
index 0a1ca00..3ea7dd6 100644
--- a/dbtmetabase/parsers/dbt_manifest.py
+++ b/dbtmetabase/parsers/dbt_manifest.py
@@ -202,6 +202,16 @@ class DbtManifestReader(DbtReader):
)
continue
+ ... |
gouline__dbt-metabase-224 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"dbtmetabase/_exposures.py:ExposuresMixin.__extract_card_exposures"
],
"edited_modules": [
"dbtmetabase/_exposures.py:ExposuresMixin"
]
},
"file": "dbtmetabase/_exposure... | gouline/dbt-metabase | 2f8c88dedc76fc1001aeb95bfdc1914c45ca5999 | Exposures command fails. dbtmetabase/_exposures.py; Function: __extract_card_exposures(); dbt-metabase: 1.0.1
When I run `dbt-metabase exposures` I get the following error:
```bash
Traceback (most recent call last):
File "/pypoetry/virtualenvs/dbt-yDNzCqHh-py3.10/bin/dbt-metabase", line 8, in <module>
sys.e... | diff --git a/dbtmetabase/_exposures.py b/dbtmetabase/_exposures.py
index c42c05a..65d33b8 100644
--- a/dbtmetabase/_exposures.py
+++ b/dbtmetabase/_exposures.py
@@ -196,7 +196,7 @@ class ExposuresMixin(metaclass=ABCMeta):
depends += self.__extract_card_exposures(
ctx,
... |
gouline__dbt-metabase-233 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"dbtmetabase/format.py:Filter.match"
],
"edited_modules": [
"dbtmetabase/format.py:Filter"
]
},
"file": "dbtmetabase/format.py"
}
] | gouline/dbt-metabase | d9f50dc0bdcf26fe52cf88de4075664cf310bdad | Add wildcard syntax to table filters
Certain models - such as staging tables - might not be a part of Metabase's table definitions. As opposed to having to specify all includes or excludes, `dbtmetabase` should allow you to define a wildcard to exclude them, i.e.
```python
c.export_models(
meta... | diff --git a/Makefile b/Makefile
index ee21a27..068fca0 100644
--- a/Makefile
+++ b/Makefile
@@ -77,7 +77,7 @@ sandbox-models:
--metabase-username $$MB_USER \
--metabase-password $$MB_PASSWORD \
--metabase-database $$POSTGRES_DB \
- --include-schemas "public",other \
+ --include-schemas "pub*",other \
--h... |
gouline__dbt-metabase-234 | [
{
"changes": {
"added_entities": [
"dbtmetabase/manifest.py:Manifest._set_column_relationship"
],
"added_modules": null,
"edited_entities": [
"dbtmetabase/manifest.py:Manifest._read_column",
"dbtmetabase/manifest.py:Manifest._set_column_fk"
],
"edited_... | gouline/dbt-metabase | d8788cc994f64730bb2e5f6c7818b5cd9f86c756 | Add support for constraints
[constraints](https://docs.getdbt.com/reference/resource-properties/constraints) seem to be the modern way to define relationships in dbt. Plugins such as [dbt_constraints](https://hub.getdbt.com/Snowflake-Labs/dbt_constraints/latest/) make use of this metadata. Should `dbt-metabase` also su... | diff --git a/dbtmetabase/manifest.py b/dbtmetabase/manifest.py
index 14a0b94..014ef03 100644
--- a/dbtmetabase/manifest.py
+++ b/dbtmetabase/manifest.py
@@ -3,6 +3,7 @@ from __future__ import annotations
import dataclasses as dc
import json
import logging
+import re
from enum import Enum
from pathlib import Path
... |
gouline__dbt-metabase-271 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"dbtmetabase/__main__.py:_add_setup",
"dbtmetabase/__main__.py:exposures"
],
"edited_modules": [
"dbtmetabase/__main__.py:_add_setup",
"dbtmetabase/__main__.py:exposur... | gouline/dbt-metabase | 8647627922fc52f91dc6781661e6b6e07b9b3f15 | Add tag to exported exposures
It would be very useful to have the possibility of passing one (or more) tags as a parameter so that they can be placed within the exposures.
```
dbt-metabase exposures \
--manifest-path target/manifest.json \
--metabase-url https://metabase.example.com \
--metabase-api-... | diff --git a/Makefile b/Makefile
index 1fb21a2..a7126aa 100644
--- a/Makefile
+++ b/Makefile
@@ -94,6 +94,7 @@ sandbox-exposures:
--metabase-password $$MB_PASSWORD \
--output-path sandbox/models/exposures \
--output-grouping collection \
+ --tag metabase \
--verbose )
( . sandbox/.env && cd sandbox &&... |
gouline__dbt-metabase-284 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"dbtmetabase/_exposures.py:ExposuresMixin.extract_exposures",
"dbtmetabase/_exposures.py:ExposuresMixin.__format_exposure"
],
"edited_modules": [
"dbtmetabase/_exposures.py:Ex... | gouline/dbt-metabase | 78e813302fe7c25d7e16d99d928ee12cccaf7fe7 | Additional metadata to understand "usability" of a card
Hi there,
I'm a big fan of `dbt-metabase`! Especially the `exposures` feature has been a complete game changer to avoid deploying model changes that would break metabase cards.
With a growing number of cards in Metabase, my team figured that it's not only im... | diff --git a/dbtmetabase/_exposures.py b/dbtmetabase/_exposures.py
index 610cf16..3c5d9aa 100644
--- a/dbtmetabase/_exposures.py
+++ b/dbtmetabase/_exposures.py
@@ -112,6 +112,8 @@ class ExposuresMixin(metaclass=ABCMeta):
depends = set()
native_query = ""
header = ""
+... |
gpauloski__3pseatBot-27 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"threepseat/commands/commands.py:admin_or_owner"
],
"edited_modules": [
"threepseat/commands/commands.py:admin_or_owner"
]
},
"file": "threepseat/commands/commands.py"
... | gpauloski/3pseatBot | 0387011622b28b39771db2fe4fb2fc821255436e | `admin_or_owner` is not working for owner part.
### Describe the problem.
Admins can run commands decorated with `@app_commands.check(admin_or_owner)` but it does not work for the bot owner that is not an admin in that guild.
Maybe the interaction client is not a bot? https://github.com/gpauloski/3pseatBot/blob/0... | diff --git a/threepseat/commands/commands.py b/threepseat/commands/commands.py
index ec712f7..2b14d02 100644
--- a/threepseat/commands/commands.py
+++ b/threepseat/commands/commands.py
@@ -94,10 +94,10 @@ async def admin_or_owner(interaction: discord.Interaction) -> bool:
>>> @app_commands.check(admin_or_owner... |
gpauloski__3pseatBot-66 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "threepseat/__init__.py"
},
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"threepseat/ex... | gpauloski/3pseatBot | 720b686740b30b640f1bdabb170616e1e196c961 | Rules cooldown begins at start of last event
### Describe the problem.
The cooldown should start from the end of the last event.
### (Optional) How did you install and run 3pseatBot?
_No response_
### (Optional) What version of 3pseatBot are you using?
_No response_ | diff --git a/setup.cfg b/setup.cfg
index 1efa137..370272a 100644
--- a/setup.cfg
+++ b/setup.cfg
@@ -1,6 +1,6 @@
[metadata]
name = threepseat
-version = 2.1.4
+version = 2.1.5
description = 3pseatBot: a Discord Bot
long_description = file: README.md
long_description_content_type = text/markdown
diff --git a/threep... |
gpauloski__3pseatBot-68 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "threepseat/__init__.py"
},
{
"changes": {
"added_entities": [
"threepseat/ext/sounds/commands.py:SoundCommands.on_voice_state_update",
... | gpauloski/3pseatBot | 3a318b412ddf4ec172e9d7dec928065a6003e72d | Play sounds on member voice channel join
### Describe the Request
Members can register a sound to their account that will play when they join a voice channel in the guild.
```
/sounds register [name] # name should autocomplete
```
Adding a second table to the `SoundCommands` is probably the easiest way to a... | diff --git a/setup.cfg b/setup.cfg
index 370272a..5677875 100644
--- a/setup.cfg
+++ b/setup.cfg
@@ -1,6 +1,6 @@
[metadata]
name = threepseat
-version = 2.1.5
+version = 2.1.6
description = 3pseatBot: a Discord Bot
long_description = file: README.md
long_description_content_type = text/markdown
diff --git a/threep... |
grabbles__grabbit-48 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "grabbit/__init__.py"
},
{
"changes": {
"added_entities": [
"grabbit/core.py:File.entities",
"grabbit/core.py:File.domains",
... | grabbles/grabbit | c1a811a2a41153afec970f73923c0a53c66ef694 | would fail to work on bids datasets which have a directory starting with . somewhere in their paths
Originally (https://github.com/datalad/datalad/issues/2150) I thought that the issue is symlinked directory somewhere in the path, so was trying to figure out where path `realpath`-ing is happening... long story short th... | diff --git a/grabbit/__init__.py b/grabbit/__init__.py
index 35f4778..4d08018 100644
--- a/grabbit/__init__.py
+++ b/grabbit/__init__.py
@@ -1,10 +1,12 @@
-from .core import File, Entity, Layout, merge_layouts
+from .core import File, Entity, Layout, Tag, Domain, merge_layouts
from .extensions import (replace_entities... |
grabbles__grabbit-49 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "grabbit/__init__.py"
},
{
"changes": {
"added_entities": [
"grabbit/core.py:File.entities",
"grabbit/core.py:File.domains",
... | grabbles/grabbit | c1a811a2a41153afec970f73923c0a53c66ef694 | Hierarchical specifications
Currently grabbit assumes that all folders/files below the project root obey the same spec. For a variety of reasons, it would be good to allow hierarchical specifications, so that on the initial scan, each folder would be checked for its own .json spec, and if one is found, the entities def... | diff --git a/grabbit/__init__.py b/grabbit/__init__.py
index 35f4778..4d08018 100644
--- a/grabbit/__init__.py
+++ b/grabbit/__init__.py
@@ -1,10 +1,12 @@
-from .core import File, Entity, Layout, merge_layouts
+from .core import File, Entity, Layout, Tag, Domain, merge_layouts
from .extensions import (replace_entities... |
grabbles__grabbit-54 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"grabbit/core.py:Domain.__init__",
"grabbit/core.py:Layout.__init__",
"grabbit/core.py:Layout._check_inclusions",
"grabbit/core.py:Layout._get_domains_for_file",
"grabbit/... | grabbles/grabbit | 546ea88e8c04f263c2fecad2bc7314d59a5c0587 | Enable coveralls | diff --git a/.coveragerc b/.coveragerc
index a72e893..777a95e 100644
--- a/.coveragerc
+++ b/.coveragerc
@@ -1,5 +1,5 @@
[run]
-source =
- grabbit/
+include = grabbit/
omit =
- */tests/*
+ */tests/*
+ */external/*
diff --git a/.travis.yml b/.travis.yml
index 57590d2..96455a0 100644
--- a/.travis.yml
+++ b/.travis.... |
grabbles__grabbit-6 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"grabbit/core.py:Layout.get"
],
"edited_modules": [
"grabbit/core.py:Layout"
]
},
"file": "grabbit/core.py"
}
] | grabbles/grabbit | afe361809ca5c040a46caa9f8a9bae017bcc706e | Redefining File class is confusing
Returning File objects which are something different that python build in [file object](https://docs.python.org/3/glossary.html#term-file-object) | diff --git a/grabbit/core.py b/grabbit/core.py
index 84009db..a2a87be 100644
--- a/grabbit/core.py
+++ b/grabbit/core.py
@@ -197,7 +197,7 @@ class Layout(object):
return_type (str): Type of result to return. Valid values:
'tuple': returns a list of namedtuples containing file name as
... |
grabbles__grabbit-60 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"grabbit/core.py:File.as_named_tuple"
],
"edited_modules": [
"grabbit/core.py:File"
]
},
"file": "grabbit/core.py"
}
] | grabbles/grabbit | 2d48a95f25c674ae64225d426722ac22b64f278b | Handle entity names that conflict with reserved keywords
In cases where an `Entity` uses a reserved keyword as its name (e.g., `class`), exceptions can occur for some `.get()` queries (e.g., when `return_type='tuple'`, because reserved keywords can't be attributes). We need to find some workaround for this--e.g., setti... | diff --git a/grabbit/core.py b/grabbit/core.py
index cdb0663..8c3c375 100644
--- a/grabbit/core.py
+++ b/grabbit/core.py
@@ -9,6 +9,7 @@ from os.path import (join, basename, dirname, abspath, split, isabs, exists)
from functools import partial
from copy import deepcopy
import warnings
+from keyword import iskeyword
... |
grabbles__grabbit-63 | [
{
"changes": {
"added_entities": [
"grabbit/core.py:Entity.match_file"
],
"added_modules": null,
"edited_entities": [
"grabbit/core.py:File._matches",
"grabbit/core.py:File.copy",
"grabbit/core.py:Domain.__init__",
"grabbit/core.py:Entity.matches",... | grabbles/grabbit | 3fe38c7e7eb510a38e6c2d072bdc913aaa1b7389 | Domain root should default to directory containing config file
It looks like if no root is specified in a directory-specific domain (or if `root == '.'`) then the root of that domain is set to the _global_ (`Layout`-level) root. I'm confused by this behavior. I'd have intuitively thought that the domain's root would b... | diff --git a/grabbit/core.py b/grabbit/core.py
index 166f17c..4a4eaa3 100644
--- a/grabbit/core.py
+++ b/grabbit/core.py
@@ -5,11 +5,13 @@ from collections import defaultdict, OrderedDict, namedtuple
from grabbit.external import six, inflect
from grabbit.utils import natural_sort, listify
from grabbit.extensions.wri... |
gradio-app__gradio-1437 | [
{
"changes": {
"added_entities": [
"gradio/blocks.py:Blocks.__call__",
"gradio/blocks.py:Blocks.__str__",
"gradio/blocks.py:Blocks.__repr__",
"gradio/blocks.py:Blocks.preprocess_data",
"gradio/blocks.py:Blocks.call_function",
"gradio/blocks.py:Blocks.postpro... | gradio-app/gradio | 74ccf3e957704f793ada88f4786633e847fc8a03 | Gradio 3.0 cannot load interfaces from Gradio 2
### Describe the bug
Loading an interface of a Space that has <3 from a Space with Gradio 3.0 breaks
### Is there an existing issue for this?
- [X] I have searched the existing issues
### Reproduction
https://huggingface.co/spaces/osanseviero/mix_match_gradio
### Sc... | diff --git a/gradio/blocks.py b/gradio/blocks.py
index 6cb19350f..0b0a434e2 100644
--- a/gradio/blocks.py
+++ b/gradio/blocks.py
@@ -1,11 +1,13 @@
from __future__ import annotations
+import copy
import getpass
import inspect
import os
import random
import sys
import time
+import warnings
import webbrowser
fr... |
gradio-app__gradio-1667 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"gradio/components.py:Audio.deserialize"
],
"edited_modules": [
"gradio/components.py:Audio"
]
},
"file": "gradio/components.py"
}
] | gradio-app/gradio | 8c9a9a9696c54d109a8a2ca808b34221f56b0a90 | TypeError in TTS demo
### Describe the bug
Looking to demo a text-to-speech model using the [fastspeech2 checkpoint](https://huggingface.co/facebook/fastspeech2-en-ljspeech) from the HF hub as follows:
```python
import gradio as gr
gr.Interface.load("huggingface/facebook/fastspeech2-en-ljspeech").launch();
```... | diff --git a/gradio/components.py b/gradio/components.py
index dad746069..f977fdca9 100644
--- a/gradio/components.py
+++ b/gradio/components.py
@@ -2119,7 +2119,7 @@ class Audio(Changeable, Clearable, Playable, Streamable, IOComponent):
return processing_utils.encode_url_or_file_to_base64(y)
def deseri... |
gradio-app__gradio-1685 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"gradio/components.py:Radio.postprocess"
],
"edited_modules": [
"gradio/components.py:Radio"
]
},
"file": "gradio/components.py"
}
] | gradio-app/gradio | eb42fc3cf874e2252536623462eab02d3d27f07f | Dropdown is disabled when created with blocks
### Describe the bug
Hi,
Tried creating gradio app with blocks, Dropdown was disabled after launch.
### Is there an existing issue for this?
- [x] I have searched the existing issues
### Reproduction
```
import gradio as gr
demo = gr.Blocks()
with demo:
... | diff --git a/gradio/components.py b/gradio/components.py
index f977fdca9..246016f70 100644
--- a/gradio/components.py
+++ b/gradio/components.py
@@ -1233,9 +1233,7 @@ class Radio(Changeable, IOComponent):
Returns:
(str): string of choice
"""
- return (
- y if y is not None e... |
gradio-app__gradio-3091 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"gradio/processing_utils.py:decode_base64_to_image"
],
"edited_modules": [
"gradio/processing_utils.py:decode_base64_to_image"
]
},
"file": "gradio/processing_utils.py"
... | gradio-app/gradio | 5264b4c6ff086844946d5e17e4bbc4554766bcb3 | images rotated
### Describe the bug
When I upload an image on my iphone it gets rotated vs. uploading the same image on desktop.
I assume this might have something to do with the iphone image upload being HEIC.
### Is there an existing issue for this?
- [X] I have searched the existing issues
### Repro... | diff --git a/CHANGELOG.md b/CHANGELOG.md
index ad4e223b7..db0445848 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -1,7 +1,17 @@
# Upcoming Release
## New Features:
-No changes to highlight.
+
+### iOS image rotation fixed 🔄
+
+Previously photos uploaded via iOS would be rotated after processing. This has been fi... |
gradio-app__gradio-3196 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"gradio/queueing.py:Queue.gather_event_data",
"gradio/queueing.py:Queue.send_message",
"gradio/queueing.py:Queue.get_message"
],
"edited_modules": [
"gradio/queueing.p... | gradio-app/gradio | fa094a03e231da55a2b1504780f707cba436178c | load events don't work well on HF spaces if queue enabled
### Describe the bug
I've noticed that some demos don't work well on HF spaces. If you go to them, you'll see that the queue is really large and doesn't go down.
The one thing these demos all have in common is that they have load events and the queue enabled... | diff --git a/CHANGELOG.md b/CHANGELOG.md
index 9fea5bb9e..e6e15fdc9 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -8,10 +8,10 @@
## Bug Fixes:
- Ensure `mirror_webcam` is always respected by [@pngwn](https://github.com/pngwn) in [PR 3245](https://github.com/gradio-app/gradio/pull/3245)
- Fix issue where updated ma... |
gramener__gramex-566 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"gramex/config.py:_calc_value"
],
"edited_modules": [
"gramex/config.py:_calc_value"
]
},
"file": "gramex/config.py"
}
] | gramener/gramex | 1906389650a482aad5676dea5132113a72755401 | Invalid computed variable crashes Gramex
If we have
```yaml
variables:
INVALID_FUNCTION:
function: nonexistent()
```
... this prevents Gramex from starting up. It should warn and continue with the default value of the variable instead. | diff --git a/gramex/config.py b/gramex/config.py
index 8c137231..4832bfe7 100644
--- a/gramex/config.py
+++ b/gramex/config.py
@@ -240,9 +240,12 @@ def _calc_value(val, key):
if val.get('function'):
from .transforms import build_transform
function = build_transform(val, vars={'key': N... |
grampajoe__happy-6 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"happy/__init__.py:Happy.create"
],
"edited_modules": [
"happy/__init__.py:Happy"
]
},
"file": "happy/__init__.py"
},
{
"changes": {
"added_entities": null... | grampajoe/happy | 7121a2d81b511fd198624ddb37526ef541ffd2c6 | Add an --env option to pass env overrides
There should be an `--env` option for `happy up` that allows passing env overrides to the `app-setups` endpoint. | diff --git a/README.rst b/README.rst
index 1acae81..738e6ed 100644
--- a/README.rst
+++ b/README.rst
@@ -75,6 +75,13 @@ happy can find it later.
logged in through Heroku CLI, i.e. your token is stored in your ``netrc``
file.
+- ``--env``
+
+ (optional) Environment variable overrides, e.g. ``--env KEY=value``. ... |
graphcore-research__gfloat-26 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/gfloat/decode.py:decode_float"
],
"edited_modules": [
"src/gfloat/decode.py:decode_float"
]
},
"file": "src/gfloat/decode.py"
},
{
"changes": {
"added... | graphcore-research/gfloat | be5928f823f800f5d49c0e8c878692b80fa6b430 | `test/test_encode.py::test_encode[binary32]` is faling on 32-bit x86
When running the test suite on a 32-bit x86 system, I'm getting the following test failure:
```pytb
$ python -m pytest --ignore test/test_microxcaling.py -l
========================================================= test session starts ===========... | diff --git a/src/gfloat/decode.py b/src/gfloat/decode.py
index 47f1403..ffb0093 100644
--- a/src/gfloat/decode.py
+++ b/src/gfloat/decode.py
@@ -21,6 +21,8 @@ def decode_float(fi: FormatInfo, i: int) -> FloatValue:
ValueError:
If :paramref:`i` is outside the range of valid code points in :paramref:`fi`.... |
graphistry__pygraphistry-562 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphistry/compute/ast.py:maybe_filter_dict_from_json"
],
"edited_modules": [
"graphistry/compute/ast.py:maybe_filter_dict_from_json"
]
},
"file": "graphistry/compute/a... | graphistry/pygraphistry | 4cc316b570e10edadce391ce490228dff7361689 | [FEA] predicates dont translate from json to python
```
import graphistry
from graphistry import n, e_forward, is_in
chain_operations = graphistry.Chain([n(name="is_carib_bank_origin"),e_forward(hops=1, edge_match={"originator_bank_country": is_in(options=["Cayman Islands", "Bermuda", "Virgin Islands British", "Br... | diff --git a/CHANGELOG.md b/CHANGELOG.md
index ea4821ae..e2ab8fa7 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -7,6 +7,12 @@ This project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.htm
## [Development]
+## [0.33.8 - 2024-04-30]
+
+### Added
+
+* Fix from_json when json object contains predi... |
graphql-python__gql-322 | [
{
"changes": {
"added_entities": [
"gql/dsl.py:DSLVariable.default"
],
"added_modules": null,
"edited_entities": [
"gql/dsl.py:ast_from_value",
"gql/dsl.py:DSLVariable.__init__",
"gql/dsl.py:DSLVariable.to_ast_type",
"gql/dsl.py:DSLVariable.set_typ... | graphql-python/gql | a4641d08e29276a22e2aa55b3d37bd5558aa781d | Default values when using DSLVariables.
As an user, I sometimes write queries this way:
```
gql("""query SomeQuery($arg: Int = 100) {
field(input=$arg) {
...
}
}""")
```
That gives me some flexibility as I can execute this query without passing any variables. I haven't found how to do this using the D... | diff --git a/docs/advanced/dsl_module.rst b/docs/advanced/dsl_module.rst
index fd48527..1c2c1c8 100644
--- a/docs/advanced/dsl_module.rst
+++ b/docs/advanced/dsl_module.rst
@@ -206,6 +206,35 @@ will generate a query equivalent to::
}
}
+Variable arguments with a default value
+""""""""""""""""""""""""""""... |
graphql-python__gql-338 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"gql/utilities/serialize_variable_values.py:serialize_value"
],
"edited_modules": [
"gql/utilities/serialize_variable_values.py:serialize_value"
]
},
"file": "gql/utilit... | graphql-python/gql | 5912f8fe1526f803d71e76d8450b00c23909da17 | Cannot omit optional arguments in mutation using serialize_variables=True
**Describe the bug**
If the schema defines optional input arguments (no `!`) for a mutation, the [execute method](https://gql.readthedocs.io/en/stable/modules/gql.html#gql.Client.execute) requires those `variable_values` to be `None`. They can... | diff --git a/gql/utilities/serialize_variable_values.py b/gql/utilities/serialize_variable_values.py
index 833df8b..38ad199 100644
--- a/gql/utilities/serialize_variable_values.py
+++ b/gql/utilities/serialize_variable_values.py
@@ -85,6 +85,7 @@ def serialize_value(type_: GraphQLType, value: Any) -> Any:
retu... |
graphql-python__gql-359 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"gql/client.py:Client._build_schema_from_introspection",
"gql/client.py:SyncClientSession.execute",
"gql/client.py:AsyncClientSession.subscribe",
"gql/client.py:AsyncClientSession... | graphql-python/gql | 5a9c0cca271b23915a621339a28004dc457a4bdc | Client crashes on 429 HTTP response code
**Describe the bug**
This bug occurred as I was fetching data from the Santiment API (https://api.santiment.net/graphiql). If no API key is supplied, rate limiting kicks in after a while and the client gets a 429 HTTP response code (nr. of tries remaining are in the headers).
... | diff --git a/gql/client.py b/gql/client.py
index 6a6f5a6..69804fa 100644
--- a/gql/client.py
+++ b/gql/client.py
@@ -34,6 +34,7 @@ from .transport.transport import Transport
from .utilities import build_client_schema
from .utilities import parse_result as parse_result_fn
from .utilities import serialize_variable_val... |
graphql-python__graphene-1473 | [
{
"changes": {
"added_entities": [
"graphene/types/enum.py:EnumMeta.__iter__"
],
"added_modules": null,
"edited_entities": null,
"edited_modules": [
"graphene/types/enum.py:EnumMeta"
]
},
"file": "graphene/types/enum.py"
}
] | graphql-python/graphene | f891a3683dbc1198d6b7dfad1835a16ca3562452 | KeyError: 0 while iterating PyEnum-style
KeyError: 0 arises when I try to iterate over graphene Enums. The same code with PyEnums works fine:
```
from graphene import Enum
class Class(Enum):
FIRST = "first"
SECOND = "second"
for c in Class:
print(c)
```
* **What is the expected behavior?**
O... | diff --git a/graphene/types/enum.py b/graphene/types/enum.py
index 0f68236..58e65c6 100644
--- a/graphene/types/enum.py
+++ b/graphene/types/enum.py
@@ -56,6 +56,9 @@ class EnumMeta(SubclassWithMeta_Meta):
return super(EnumMeta, cls).__call__(*args, **kwargs)
# return cls._meta.enum(*args, **kwargs)
... |
graphql-python__graphene-1478 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene/types/schema.py:TypeMap.create_enum"
],
"edited_modules": [
"graphene/types/schema.py:TypeMap"
]
},
"file": "graphene/types/schema.py"
}
] | graphql-python/graphene | f09b2e5a81ea3ca108ccc972b65966ec363a4e78 | cannot have Enum member named "description"
if the enum contains member called "descrpition" or "deprecation_reason", graphql schema-bullding validations die with error like :
TypeError: The description of the enum value must be a string
Happens on latest beta version, and depends on grapql's version.
This seems... | diff --git a/graphene/types/schema.py b/graphene/types/schema.py
index 1a33a93..7fa046d 100644
--- a/graphene/types/schema.py
+++ b/graphene/types/schema.py
@@ -1,3 +1,4 @@
+from enum import Enum as PyEnum
import inspect
from functools import partial
@@ -169,10 +170,16 @@ class TypeMap(dict):
values = {}
... |
graphql-python__graphene-641 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene/relay/connection.py:Connection.__init_subclass_with_meta__"
],
"edited_modules": [
"graphene/relay/connection.py:Connection"
]
},
"file": "graphene/relay/conne... | graphql-python/graphene | 38db32e4f2d57f54a77879f9277ad4408792c881 | Bug: Name of a connection is always the name of the class
```
class BranchesOnClient(relay.Connection):
pass
```
Based on the implementation of `relay.Connection` I expect the default name to be `BranchesOnClientConnection`.
```
class BranchesOnClient(relay.Connection, name="Foo"):
pass
```
Now I... | diff --git a/graphene/relay/connection.py b/graphene/relay/connection.py
index afe6ffb..3e2e9ad 100644
--- a/graphene/relay/connection.py
+++ b/graphene/relay/connection.py
@@ -73,7 +73,7 @@ class Connection(ObjectType):
edge = type(edge_name, edge_bases, {})
cls.Edge = edge
- _meta.name = na... |
graphql-python__graphene-644 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene/utils/str_converters.py:to_camel_case"
],
"edited_modules": [
"graphene/utils/str_converters.py:to_camel_case"
]
},
"file": "graphene/utils/str_converters.py"
... | graphql-python/graphene | 38db32e4f2d57f54a77879f9277ad4408792c881 | Fields with numbers in names do not capitalize correctly
I noticed that the field with names containing numbers (e.g. `field_i18n`) doesn't capitalize correctly.
For example:
`correct_field` becomes `correctField`, but `field_i18n` becomes `field_I18N` and `t1e2s3t` becomes `t1E2S3T` which is obvious incorrect.
... | diff --git a/graphene/utils/str_converters.py b/graphene/utils/str_converters.py
index ae8ceff..6fcdfb7 100644
--- a/graphene/utils/str_converters.py
+++ b/graphene/utils/str_converters.py
@@ -1,13 +1,13 @@
import re
-# From this response in Stackoverflow
+# Adapted from this response in Stackoverflow
# http://st... |
graphql-python__graphene-751 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene/relay/node.py:Node.get_node_from_global_id"
],
"edited_modules": [
"graphene/relay/node.py:Node"
]
},
"file": "graphene/relay/node.py"
}
] | graphql-python/graphene | 7bd77a0817677656e2ed8e8ac235ab5e8d557487 | Incorrectly formatted error message.
The error message generated here is incorrect. It should be `only_type._meta.name` instead of `graphene_type._meta.name`. This way the expected value will be reported, which is what the message says it is.
https://github.com/graphql-python/graphene/blob/7bd77a0817677656e2ed8e8ac2... | diff --git a/graphene/relay/node.py b/graphene/relay/node.py
index 6596757..5c787ff 100644
--- a/graphene/relay/node.py
+++ b/graphene/relay/node.py
@@ -101,8 +101,8 @@ class Node(AbstractNode):
if only_type:
assert graphene_type == only_type, (
- 'Must receive an {} id.'
- ... |
graphql-python__graphene-752 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene/types/inputobjecttype.py:InputObjectType.__init_subclass_with_meta__"
],
"edited_modules": [
"graphene/types/inputobjecttype.py:InputObjectType"
]
},
"file": "... | graphql-python/graphene | 332214ba9c545b6d899e181a34666540f02848fe | InputObjectType.__init_sublcass_with_meta__ overwrites passed _meta.fields
In `InputObjectType.__init_subclass_with_meta__`, the`fields` of the `_meta` arg are overwritten, which can cause complications for subclassing.
@classmethod
def __init_subclass_with_meta__(cls, container=None, _meta=None, **optio... | diff --git a/graphene/types/inputobjecttype.py b/graphene/types/inputobjecttype.py
index dbfccc4..b84fc0f 100644
--- a/graphene/types/inputobjecttype.py
+++ b/graphene/types/inputobjecttype.py
@@ -50,7 +50,10 @@ class InputObjectType(UnmountedType, BaseType):
yank_fields_from_attrs(base.__dict__, _as=I... |
graphql-python__graphene-957 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene/types/enum.py:EnumMeta.__call__"
],
"edited_modules": [
"graphene/types/enum.py:EnumMeta"
]
},
"file": "graphene/types/enum.py"
}
] | graphql-python/graphene | abff3d75a39bc8f2d1fdb48aafa1866cf47dfff6 | Cannot create a enum with a deprecation reason supplied
## How to reproduce
```python
options = {
'description': 'This my enum',
'deprecation_reason': 'For the funs'}
graphene.Enum('MyEnum', [('some', 'data')], **options)
```
## What happened
```
File "/Users/Development/saleor/saleor/graphql/core/... | diff --git a/graphene/types/enum.py b/graphene/types/enum.py
index 6e6bab8..7b8e71f 100644
--- a/graphene/types/enum.py
+++ b/graphene/types/enum.py
@@ -46,7 +46,12 @@ class EnumMeta(SubclassWithMeta_Meta):
def __call__(cls, *args, **kwargs): # noqa: N805
if cls is Enum:
description = kwargs... |
graphql-python__graphene-980 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "graphene/__init__.py"
},
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene/types/... | graphql-python/graphene | 1fcdeaac655919f08cf1306ab4a405060f879634 | Bad hyperlink on documentation
NonNull reference under required field from this page https://docs.graphene-python.org/en/latest/types/scalars/ redirects to an inexistent page, namely:
`https://docs.graphene-python.org/en/latest/types/scalars/list-and-nonnull/#nonnull`
The correct link is
`https://docs.graphene-pyth... | diff --git a/CODEOWNERS b/CODEOWNERS
index 26bb1af..e4457b1 100644
--- a/CODEOWNERS
+++ b/CODEOWNERS
@@ -1,1 +1,3 @@
/ @syrusakbary @ekampf @dan98765 @projectcheshire
+/docs/ @dvndrsn @phalt @changeling
+/examples/ @dvndrsn @phalt @changeling
diff --git a/README.rst b/README.rst
index d6f4592..bb8fecb 100644
--- a/REA... |
graphql-python__graphene-django-1063 | [
{
"changes": {
"added_entities": [
"graphene_django/fields.py:DjangoListField.get_manager"
],
"added_modules": null,
"edited_entities": [
"graphene_django/fields.py:DjangoListField.get_default_queryset",
"graphene_django/fields.py:DjangoListField.list_resolver",
... | graphql-python/graphene-django | eb7a0265d8360d539385f9ce152ec95d74cc5f1a | DjangoListField returning stale data by default
https://repl.it/talk/share/DjangoListField-bug/79205
Idk if this is the correct way of sharing the repl, if not, lmk
Repro:
1. Create superuser
2. In one tab, run query
```py
{
allRecipes {
id
title
instructions
}
}
```
3. In another tab, g... | diff --git a/graphene_django/fields.py b/graphene_django/fields.py
index 78efceb..fdf95aa 100644
--- a/graphene_django/fields.py
+++ b/graphene_django/fields.py
@@ -43,16 +43,16 @@ class DjangoListField(Field):
def model(self):
return self._underlying_type._meta.model
- def get_default_queryset(self)... |
graphql-python__graphene-django-1083 | [
{
"changes": {
"added_entities": [
"graphene_django/converter.py:convert_field_to_decimal"
],
"added_modules": [
"graphene_django/converter.py:convert_field_to_decimal"
],
"edited_entities": null,
"edited_modules": null
},
"file": "graphene_django/conv... | graphql-python/graphene-django | e559a42374529378dbdcb6bcb4f3ff704312a66b | Convert DecimalField to String rather than Float
DecimalField entries are currently being converted to Float (https://github.com/graphql-python/graphene-django/blob/8f5a425859ea380d0640c441c5c7f3b1acae17b4/graphene_django/form_converter.py#L56-L59)
Full support for Decimal would be great, but in the meantime I propo... | diff --git a/graphene_django/converter.py b/graphene_django/converter.py
index 0de6964..63cc35d 100644
--- a/graphene_django/converter.py
+++ b/graphene_django/converter.py
@@ -18,6 +18,7 @@ from graphene import (
DateTime,
Date,
Time,
+ Decimal,
)
from graphene.types.json import JSONString
from gr... |
graphql-python__graphene-django-1477 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene_django/converter.py:convert_django_field_with_choices"
],
"edited_modules": [
"graphene_django/converter.py:convert_django_field_with_choices"
]
},
"file": "gr... | graphql-python/graphene-django | feb7252b8a12ebdfd056a34cf42c489ec4d001ba | Provide setting to enable/disable converting choices to enums globally
In our project we want to disable the auto-convertion of Django choice fields to Enums for every model.
To specify convert_choices_to_enum = False on every Type is a bit cumbersome so a global setting would help a lot.
I've created a PR which sh... | diff --git a/docs/settings.rst b/docs/settings.rst
index 79c52e2..521e434 100644
--- a/docs/settings.rst
+++ b/docs/settings.rst
@@ -142,6 +142,15 @@ Default: ``False``
# ]
+``DJANGO_CHOICE_FIELD_ENUM_CONVERT``
+--------------------------------------
+
+When set to ``True`` Django choice fields are automaticall... |
graphql-python__graphene-django-837 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene_django/rest_framework/mutation.py:SerializerMutation.get_serializer_kwargs"
],
"edited_modules": [
"graphene_django/rest_framework/mutation.py:SerializerMutation"
]
... | graphql-python/graphene-django | b66a3f347947804d0ab7d9763309e2977b5bcd5a | Slightly incorrect Travis pipeline
In current implementation, when testing a tagged commit, PyPI release would be triggered after the first success. This is incorrect, since what works on Python 3.5 might not work on Python 3.6 (not even talking about Python 2, which is the first one to be tested in the list).
Thus,... | diff --git a/.travis.yml b/.travis.yml
index 3531b56..1718d79 100644
--- a/.travis.yml
+++ b/.travis.yml
@@ -12,8 +12,17 @@ after_success:
- pip install coveralls
- coveralls
-matrix:
+stages:
+ - test
+ - name: deploy
+ if: tag IS present
+
+jobs:
fast_finish: true
+
+ allow_failures:
+ - env: DJAN... |
graphql-python__graphene-django-838 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "graphene_django/__init__.py"
},
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene... | graphql-python/graphene-django | 7940a7b954ef56fa9e538c3d0ff0cecb3ff54d42 | Please document using csrf_exempt for read-only POST APIs
I have a ReactJS application that is hosted on a separate domain from my Django app. But the library (Apollo) currently only makes requests with POST. Since I have no mutations in my Graphene implementations, it's pretty safe for me to use ``csrf_exempt`` for ... | diff --git a/.travis.yml b/.travis.yml
index 3531b56..bbeeb80 100644
--- a/.travis.yml
+++ b/.travis.yml
@@ -12,8 +12,17 @@ after_success:
- pip install coveralls
- coveralls
-matrix:
+stages:
+ - test
+ - name: deploy
+ if: tag IS present
+
+jobs:
fast_finish: true
+
+ allow_failures:
+ - env: DJAN... |
graphql-python__graphene-django-842 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene_django/types.py:construct_fields"
],
"edited_modules": [
"graphene_django/types.py:construct_fields"
]
},
"file": "graphene_django/types.py"
}
] | graphql-python/graphene-django | 7940a7b954ef56fa9e538c3d0ff0cecb3ff54d42 | Validate Meta.fields and Meta.exclude on DjangoObjectType
tl;dr: DjangoObjectType ignores all unknown values in `Meta.fields`. It should compare the fields list with the available Model's fields instead.
---
I'm in the process of rewriting DRF-based backend to graphene-django, and I was surprised when my graphene... | diff --git a/graphene_django/types.py b/graphene_django/types.py
index ec426f1..4824c45 100644
--- a/graphene_django/types.py
+++ b/graphene_django/types.py
@@ -33,6 +33,24 @@ def construct_fields(
):
_model_fields = get_model_fields(model)
+ # Validate the given fields against the model's fields.
+ model... |
graphql-python__graphene-django-860 | [
{
"changes": {
"added_entities": [
"graphene_django/converter.py:generate_enum_name",
"graphene_django/converter.py:convert_choice_field_to_enum"
],
"added_modules": [
"graphene_django/converter.py:generate_enum_name",
"graphene_django/converter.py:convert_choic... | graphql-python/graphene-django | 6a19ab5a4b7f3cfdb8882cf3de379c0c5b23fdab | Different types with the same name in the schema - Django fields with choices
Hi,
When you try to create a model with choices field and then create a second model which inherit from the previous one, you will receive error while schema generating.
Here you have a simple [project](https://github.com/KaRi94/graphen... | diff --git a/docs/authorization.rst b/docs/authorization.rst
index ebc9795..63123b0 100644
--- a/docs/authorization.rst
+++ b/docs/authorization.rst
@@ -166,7 +166,7 @@ To restrict users from accessing the GraphQL API page the standard Django LoginR
After this, you can use the new ``PrivateGraphQLView`` in the proje... |
graphql-python__graphene-django-885 | [
{
"changes": {
"added_entities": [
"graphene_django/converter.py:generate_enum_name",
"graphene_django/converter.py:convert_choice_field_to_enum"
],
"added_modules": [
"graphene_django/converter.py:generate_enum_name",
"graphene_django/converter.py:convert_choic... | graphql-python/graphene-django | 6a19ab5a4b7f3cfdb8882cf3de379c0c5b23fdab | 2.5.0 to 2.6.0 error: TypeError: issubclass() arg 1 must be a class
Hello,
Thanks for all the work on the new release.
I am however getting this error when upgrading to 2.6.0 from 2.5.0 and I just wanted to make sure I understand the change.
```py
Traceback (most recent call last):
File "src/manage.py",... | diff --git a/docs/authorization.rst b/docs/authorization.rst
index ebc9795..63123b0 100644
--- a/docs/authorization.rst
+++ b/docs/authorization.rst
@@ -166,7 +166,7 @@ To restrict users from accessing the GraphQL API page the standard Django LoginR
After this, you can use the new ``PrivateGraphQLView`` in the proje... |
graphql-python__graphene-django-977 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"graphene_django/converter.py:convert_postgres_array_to_list",
"graphene_django/converter.py:convert_postgres_range_to_string"
],
"edited_modules": [
"graphene_django/converte... | graphql-python/graphene-django | c00203499b00d40a696a092ab3c64759eddad0f8 | Using exact filter on Relay with ForeignKey model
I found a problem when I try to filter a model with ForeignKey. I expect to get the result below if the ID is incorrect.
```
{
"data": {
"forms": {
"edges": []
}
}
}
```
However, I get every single row in my table returned i... | diff --git a/graphene_django/converter.py b/graphene_django/converter.py
index c84b61a..92963d6 100644
--- a/graphene_django/converter.py
+++ b/graphene_django/converter.py
@@ -255,10 +255,14 @@ def convert_field_to_djangomodel(field, registry=None):
@convert_django_field.register(ArrayField)
def convert_postgres_a... |
grappa-py__grappa-39 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"grappa/operator.py:Operator.__enter__"
],
"edited_modules": [
"grappa/operator.py:Operator"
]
},
"file": "grappa/operator.py"
},
{
"changes": {
"added_ent... | grappa-py/grappa | c81d2eeaf63788dd130ba712645c82bb1af9b752 | Assertion Errors
Love the library. It is super useful!
I am trying to figure out how to see if a function raises an exception when called with a certain set of parameters.
Here is an example (a bit contrived as I am trying to raise my own Exception based on valid inputs).
```python
t = [0,1,2]
t.index(3) ... | diff --git a/grappa/operator.py b/grappa/operator.py
index 2976373..46c67d0 100644
--- a/grappa/operator.py
+++ b/grappa/operator.py
@@ -208,7 +208,7 @@ class Operator(object):
return self.run_matcher(*args, **kw)
def __enter__(self):
- raise NotImplementedError('operator cannot be used as "w... |
grappa-py__grappa-65 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "grappa/__init__.py"
},
{
"changes": {
"added_entities": [
"grappa/operators/raises.py:RaisesOperator.after_success"
],
"adde... | grappa-py/grappa | b2c14fc9731abe01e9f0ca8093aa5ebc01846437 | Checking for error/exception messages
Hello,
I'm new to grappa. I'm trying to figure out how to test the contents of an Error/Exception.
Typically,
```python
import pytest
def method():
raise RuntimeError('message')
def test_method():
with pytest.raises(RuntimeError, match='message'):
... | diff --git a/History.rst b/History.rst
index 25b1517..1011db7 100755
--- a/History.rst
+++ b/History.rst
@@ -2,70 +2,6 @@
History
=======
-1.0.0 / 2020-11-21
-------------------
-
- * feat: major version v1
- * fix: #53, #55, #48, #59 (credits to @sgissinger)
- * feat: added mock call operators (credits to @sgis... |
great-expectations__great_expectations-107 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"great_expectations/dataset/base.py:DataSet.expectation",
"great_expectations/dataset/base.py:DataSet.get_expectations_config",
"great_expectations/dataset/base.py:DataSet.save_expectatio... | great-expectations/great_expectations | e4f42b80d95cff33339681464a72d833c692dd65 | Proposal: define a clear pattern for default output_format and catch_exceptions parameters
The default value of those parameters changes based on context according to the documentation, and that is currently implemented by ```None``` triggering the default value. Document that or agree it's clear. | diff --git a/great_expectations/dataset/base.py b/great_expectations/dataset/base.py
index 14acf8ecf..47c943cba 100644
--- a/great_expectations/dataset/base.py
+++ b/great_expectations/dataset/base.py
@@ -6,6 +6,7 @@ import traceback
import pandas as pd
import numpy as np
+from collections import defaultdict
fro... |
great-expectations__great_expectations-122 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"great_expectations/dataset/base.py:DataSet.calc_map_expectation_success"
],
"edited_modules": [
"great_expectations/dataset/base.py:DataSet"
]
},
"file": "great_expecta... | great-expectations/great_expectations | c5ba7058a8afc99b7b9ce523d3cb183961a321a3 | Add unit tests for `format_column_map_output` and `calc_map_expectation_success` | diff --git a/.gitignore b/.gitignore
index 8cc0d85e1..7b686a190 100644
--- a/.gitignore
+++ b/.gitignore
@@ -103,3 +103,5 @@ ENV/
# vim backup files
*~
+
+.DS_Store
\ No newline at end of file
diff --git a/examples/notebooks/Distributional_Expectations_Demo.ipynb b/examples/notebooks/Distributional_Expectations_Dem... |
great-expectations__great_expectations-191 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"great_expectations/dataset/base.py:DataSet.validate"
],
"edited_modules": [
"great_expectations/dataset/base.py:DataSet"
]
},
"file": "great_expectations/dataset/base.p... | great-expectations/great_expectations | f4b15d20a092fcbef690506f89bddec84b8140ff | `Dataset.validate` `catch_exceptions` parameter fails if the `expectation_type` itself is unknown.
Replication code:
```
import great_expectations as ge
my_df = ge.dataset.PandasDataSet({"x":range(10)})
my_df.append_expectation({'expectation_type':'foobar', 'kwargs':{}})
my_df.validate()
```
Produces:
```
In... | diff --git a/great_expectations/dataset/base.py b/great_expectations/dataset/base.py
index 7b6b568bf..d75e3c0e6 100644
--- a/great_expectations/dataset/base.py
+++ b/great_expectations/dataset/base.py
@@ -606,18 +606,38 @@ If you wish to change this behavior, please set discard_failed_expectations, dis
war... |
great-expectations__great_expectations-296 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"great_expectations/dataset/pandas_dataset.py:PandasDataset._constructor"
],
"edited_modules": [
"great_expectations/dataset/pandas_dataset.py:PandasDataset"
]
},
"file"... | great-expectations/great_expectations | abb6d090c69a7793b98d4c8d3cbd048d614fc657 | When calling groupby on subclassed PandasDataset, groups revert to PandasDataset
It's possible I'm doing something wrong when subclassing, but:
I'm subclassing PandasDataset to create custom expectations. When calling the groupby method on these custom datasets, the groups revert to the base PandasDataset type (and... | diff --git a/great_expectations/dataset/pandas_dataset.py b/great_expectations/dataset/pandas_dataset.py
index 5b3b5447e..c53c23a11 100644
--- a/great_expectations/dataset/pandas_dataset.py
+++ b/great_expectations/dataset/pandas_dataset.py
@@ -250,7 +250,7 @@ class PandasDataset(MetaPandasDataset, pd.DataFrame):
... |
great-expectations__great_expectations-385 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"great_expectations/dataset/sqlalchemy_dataset.py:MetaSqlAlchemyDataset.column_map_expectation",
"great_expectations/dataset/sqlalchemy_dataset.py:MetaSqlAlchemyDataset.column_aggregate_expectati... | great-expectations/great_expectations | c0ab4f922b607f135caf6dac7bed16f61dbdeead | Allow passing a schema name to SqlAlchemyDataset
Currently, SqlAlchemyDataset accepts a table name but not a schema name. I'm currently working in Redshift. When I try to instantiate a `SqlAlchemyDataset`, I get a `KeyError` with `public.<tablename>`. After some inspection, I determined that the issue is popping up in ... | diff --git a/docs/source/custom_expectations.rst b/docs/source/custom_expectations.rst
index f7340871b..419814e8d 100644
--- a/docs/source/custom_expectations.rst
+++ b/docs/source/custom_expectations.rst
@@ -74,7 +74,7 @@ For SqlAlchemyDataset, the decorators work slightly differently. See the MetaSql
mod... |
great-expectations__great_expectations-390 | [
{
"changes": {
"added_entities": [
"great_expectations/dataset/sqlalchemy_dataset.py:SqlAlchemyDataset.column_reflection_fallback"
],
"added_modules": null,
"edited_entities": [
"great_expectations/dataset/sqlalchemy_dataset.py:SqlAlchemyDataset.__init__",
"great_... | great-expectations/great_expectations | 10e1792ae5f9d250d5393bc14b488e189358cccc | SqlAlchemyDatasets can't be used with custom sql for databases with multiple schemas
Instantiating a `SqlAlchemyDataset` with a database which supports multiple schemas fails on the following line:
https://github.com/great-expectations/great_expectations/blob/d7a4ee03cfce8bea66c5f91573bb87e4385b1eb1/great_expectatio... | diff --git a/docs/source/roadmap_changelog.rst b/docs/source/roadmap_changelog.rst
index 7656d1f47..5e62bc5a5 100644
--- a/docs/source/roadmap_changelog.rst
+++ b/docs/source/roadmap_changelog.rst
@@ -14,6 +14,8 @@ Planned Features
v.0.4.4__develop
----------------
+* Enable custom_sql datasets for databases with m... |
grid-parity-exchange__Egret-219 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"egret/common/lazy_ptdf_utils.py:remove_inactive"
],
"edited_modules": [
"egret/common/lazy_ptdf_utils.py:remove_inactive"
]
},
"file": "egret/common/lazy_ptdf_utils.py"... | grid-parity-exchange/Egret | 650481cc6ce7323bd7185d66f5f56cbaa39de443 | Testing for BaseMVA scaling
- [ ] scale/unscale -> attributes should be the same
- [ ] scale -> spot check various values (some that should be scaled, others that should not be) -> unscale -> spot check various values
- [ ] regression: scaled / unscaled versions of unit commitment should yield the same answer (easy t... | diff --git a/egret/common/lazy_ptdf_utils.py b/egret/common/lazy_ptdf_utils.py
index f942579..745bcb4 100644
--- a/egret/common/lazy_ptdf_utils.py
+++ b/egret/common/lazy_ptdf_utils.py
@@ -433,7 +433,6 @@ def remove_inactive(mb, solver, time=None, prepend_str=""):
branches = model.model_data.data['elements']['bran... |
grid-parity-exchange__Egret-237 | [
{
"changes": {
"added_entities": [
"egret/model_library/transmission/tx_utils.py:_insert_first_point",
"egret/model_library/transmission/tx_utils.py:_insert_last_point"
],
"added_modules": [
"egret/model_library/transmission/tx_utils.py:_insert_first_point",
"eg... | grid-parity-exchange/Egret | 4662ad213ca3f7f142dba5e97f34b2212a3d8048 | Extending PWL Costs
The PWL cost curve handling introduced in #227 fail when the lowest power point on the curve is greater than or equal p_max and when the highest power point on the curve is less than or equal to p_min.
To resolve this, we could either:
1. Determine this is a user error, in which case we should t... | diff --git a/egret/model_library/transmission/tx_utils.py b/egret/model_library/transmission/tx_utils.py
index 8c46480..fb99fb0 100644
--- a/egret/model_library/transmission/tx_utils.py
+++ b/egret/model_library/transmission/tx_utils.py
@@ -546,6 +546,21 @@ def _convert_modeldata_pu(model_data, transform_func, inplace)... |
gridsmartercities__aws-lambda-decorators-101 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"aws_lambda_decorators/classes.py:Parameter.extract_value"
],
"edited_modules": [
"aws_lambda_decorators/classes.py:Parameter"
]
},
"file": "aws_lambda_decorators/classe... | gridsmartercities/aws-lambda-decorators | a1e4059f360920d876d8310644b82dbe7a4967db | Missing extract data can set incorrect name in Parameter class
With this bug it's possible to set a default value for an incorrect key when extracting a parameter. It's also possible for incorrect key names to persist across unit tests when the Parameter object persists across tests (default behaviour in python's unitt... | diff --git a/aws_lambda_decorators/classes.py b/aws_lambda_decorators/classes.py
index 7c66a47..ec6847a 100644
--- a/aws_lambda_decorators/classes.py
+++ b/aws_lambda_decorators/classes.py
@@ -179,11 +179,10 @@ class Parameter(ValidatedParameter, BaseParameter):
"""
for path_key in filter(lambda item:... |
griffithlab__VAtools-41 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"vatools/vcf_genotype_annotator.py:create_vcf_reader",
"vatools/vcf_genotype_annotator.py:create_vcf_writer",
"vatools/vcf_genotype_annotator.py:main"
],
"edited_modules": [
... | griffithlab/VAtools | b876fe698e774e808e675ed61a722f9f1ff853b1 | Add feature to vcf-genotype-annotator to allow for adding GT field to existing samples
Right now the `vcf-genotype-annotator` will throw a fatal error if the give sample already exists in the VCF. If the GT field does not yet exist in the VCF (no header and not a field in `FORMAT`) this new option would allow for the t... | diff --git a/docs/index.rst b/docs/index.rst
index 7f26fc7..3c991e0 100644
--- a/docs/index.rst
+++ b/docs/index.rst
@@ -24,7 +24,8 @@ annotate VCF files with data from other tools.
field in the VCF INFO column.
**vcf-genotype-annotator**
- A tool to add a new sample to an existing VCF file.
+ A tool to a... |
griffithlab__VAtools-45 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"vatools/vcf_expression_annotator.py:main"
],
"edited_modules": [
"vatools/vcf_expression_annotator.py:main"
]
},
"file": "vatools/vcf_expression_annotator.py"
}
] | griffithlab/VAtools | 89b018a36870b7bebfd0ecd97da7d12ce0ccf89c | Inaccurate warning message when running vcf-expression-annotator
very minor, but if a gene is not found when running vcf-expression-annotator the warning message still says:
```WARNING:root:12 of 382 transcripts did not have an expression entry for their gene id.```
from
```vcf-expression-annotator SCLC20_R_LN.vatoo... | diff --git a/vatools/vcf_expression_annotator.py b/vatools/vcf_expression_annotator.py
index a094bad..29d7b6f 100644
--- a/vatools/vcf_expression_annotator.py
+++ b/vatools/vcf_expression_annotator.py
@@ -225,7 +225,7 @@ def main(args_input = sys.argv[1:]):
vcf_writer.close()
if missing_expressions_count > ... |
griffithlab__civicpy-49 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"civicpy/civic.py:bulk_search_variants_by_coordinates"
],
"edited_modules": [
"civicpy/civic.py:bulk_search_variants_by_coordinates"
]
},
"file": "civicpy/civic.py"
}
... | griffithlab/civicpy | 37a2f8b3cb75dc46b70ffa5884d69ffc4d29cf04 | implement intermediate search strategies
Query encompassing and record encompassing search strategies need to be implemented for bulk coordinate search. See Figure 2D from manuscript for details. | diff --git a/civicpy/civic.py b/civicpy/civic.py
index 203f39f..f6cf475 100644
--- a/civicpy/civic.py
+++ b/civicpy/civic.py
@@ -850,8 +850,8 @@ def bulk_search_variants_by_coordinates(sorted_queries, search_mode='any'):
:param search_mode: ['any', 'query_encompassing', 'variant_encompassing', 'exact']
... |
gristlabs__asttokens-110 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"asttokens/mark_tokens.py:MarkTokens.visit_joinedstr"
],
"edited_modules": [
"asttokens/mark_tokens.py:MarkTokens"
]
},
"file": "asttokens/mark_tokens.py"
},
{
"... | gristlabs/asttokens | a051af6dc04a1f8cb1d2662e016a139092b05bf6 | Compatibility with Python 3.12 and unreleased astroid 3.0.0
Hello,
I'd like to ask for help, in Fedora, we are rebuilding all Python packages with the upcoming Python 3.12.0. I've tested astroid from the main branch (last commit https://github.com/pylint-dev/astroid/commit/8d57ce2f3e226c2ac3cdd7f6a57dac2dd5ec5a4b at... | diff --git a/asttokens/mark_tokens.py b/asttokens/mark_tokens.py
index 3afce53..32b42d7 100644
--- a/asttokens/mark_tokens.py
+++ b/asttokens/mark_tokens.py
@@ -361,7 +361,34 @@ class MarkTokens(object):
last_token, # type: util.Token
):
# type: (...) -> Tuple[util.To... |
gristlabs__asttokens-37 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"asttokens/mark_tokens.py:MarkTokens._iter_non_child_tokens",
"asttokens/mark_tokens.py:MarkTokens._expand_to_matching_pairs"
],
"edited_modules": [
"asttokens/mark_tokens.py:... | gristlabs/asttokens | f207f03b669deb4af3fe9cb4df1ba40982126988 | IndexError on f((x)[:, 0])
I've had this for a while but only now found the time to boil down to a minimal reproducing case. :X
Reproducer:
```py
import asttokens
asttokens.ASTTokens('f((x)[:, 0])', parse=True)
```
Running this file gives:
```pytb
Traceback (most recent call last):
File "/tmp/reprodu... | diff --git a/asttokens/mark_tokens.py b/asttokens/mark_tokens.py
index 6ab95e4..82acb55 100644
--- a/asttokens/mark_tokens.py
+++ b/asttokens/mark_tokens.py
@@ -103,22 +103,6 @@ class MarkTokens(object):
newline = self._code.find_token(start_token, token.ENDMARKER)
return self._code.prev_token(newline)
- ... |
gristlabs__asttokens-66 | [
{
"changes": {
"added_entities": [
"asttokens/util.py:is_starred"
],
"added_modules": [
"asttokens/util.py:is_starred"
],
"edited_entities": null,
"edited_modules": null
},
"file": "asttokens/util.py"
}
] | gristlabs/asttokens | 7dc12af0f2848b4d7e112449c79439a1b6e68cf5 | Official support for 3.9 and maybe 3.10
https://github.com/gristlabs/asttokens/pull/56 added testing for 3.9 but this should be made official in setup.cfg.
3.10 should also be tested.
This is based on https://github.com/aroberge/friendly-traceback/issues/96 thinking that only 3.8 is supported. | diff --git a/.travis.yml b/.travis.yml
index d86cffc..4276339 100644
--- a/.travis.yml
+++ b/.travis.yml
@@ -1,4 +1,4 @@
-dist: xenial
+dist: bionic
language: python
sudo: false
@@ -9,8 +9,8 @@ python:
- 3.7
- 3.8-dev
- 3.9-dev
- - pypy2.7-6.0
- - pypy3.5
+ - pypy2
+ - pypy3
env:
global:
diff --g... |
gristlabs__asttokens-93 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "asttokens/__init__.py"
},
{
"changes": {
"added_entities": [
"asttokens/asttokens.py:ASTTextBase.__init__",
"asttokens/asttokens... | gristlabs/asttokens | cd739fecbda81bccdc1c57914eee9dcd6b9ddef3 | Consider a clearer optional-functionality API
Currently `ASTTokens` serves a number of different roles depending on what arguments its passed. With https://github.com/gristlabs/asttokens/pull/93 this is growing further and the workarounds to type checking being added in that PR perhaps suggest that the limits of the cu... | diff --git a/asttokens/__init__.py b/asttokens/__init__.py
index e8686d4..eeda0ed 100644
--- a/asttokens/__init__.py
+++ b/asttokens/__init__.py
@@ -19,6 +19,6 @@ transformations.
"""
from .line_numbers import LineNumbers
-from .asttokens import ASTTokens
+from .asttokens import ASTText, ASTTokens, supports_tokenle... |
gtsystem__python-remotezip-14 | [
{
"changes": {
"added_entities": [
"remotezip.py:pairwise"
],
"added_modules": [
"remotezip.py:pairwise"
],
"edited_entities": [
"remotezip.py:RemoteZip._get_position_to_size"
],
"edited_modules": [
"remotezip.py:RemoteZip"
]
},... | gtsystem/python-remotezip | 8d6634cc51e127afb7a9704c364f4fa136b5fd8d | Get 416 Client Error on some zip files
remotezip raising `remotezip.RemoteIOError` on some files. For example, http://0x0.st/o5Pa.apk (it's unavailable for now, so I re-uploaded it to https://transfer.sh/get/rndzvr/test.apk)
Also uploaded it to GitHub as zip archive: [test.zip](https://github.com/gtsystem/python-remot... | diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml
index cd0191b..c56f2c7 100644
--- a/.github/workflows/python-package.yml
+++ b/.github/workflows/python-package.yml
@@ -12,7 +12,7 @@ on:
jobs:
build:
- runs-on: ubuntu-latest
+ runs-on: ubuntu-20.04
strategy:
... |
gtsystem__python-remotezip-16 | [
{
"changes": {
"added_entities": [
"remotezip.py:RemoteFetcher.get_file_size"
],
"added_modules": null,
"edited_entities": [
"remotezip.py:RemoteFetcher.__init__",
"remotezip.py:RemoteFetcher.prepare_request",
"remotezip.py:RemoteFetcher.fetch",
"r... | gtsystem/python-remotezip | 2afca9a2df6c302f61eb612683bd4e4ee74e9cb5 | Unhandled HTTPErrors When Negative Offset Not Supported
When trying to use remotezip with PyPi, I discovered that while their server supports range requests, it does not support using a negative offset to get {content-length - bytes}-{content-length}.
When raise_for_status is called, an HTTP 501 error is returned (i... | diff --git a/README.md b/README.md
index f359611..d570447 100644
--- a/README.md
+++ b/README.md
@@ -24,6 +24,8 @@ To download the content, this library rely on the `requests` module. The constru
* ... Please look at the [requests](http://docs.python-requests.org/en/master/user/quickstart/#make-a-request) documentatio... |
gtsystem__python-remotezip-25 | [
{
"changes": {
"added_entities": [
"remotezip.py:RemoteZip.size",
"remotezip.py:_printTable"
],
"added_modules": [
"remotezip.py:_printTable"
],
"edited_entities": [
"remotezip.py:_list_files"
],
"edited_modules": [
"remotezip.py:... | gtsystem/python-remotezip | 6eb622610a8aa504fc9292ded0322996862802be | feature request: file size of remote zip file
Unfortunatelly summing up all uncompressed sizes of all zipped entries is not equivalent to the filesize if I were to download a zip file. I guess thats because the zip file itself has metadata etc.
Therefore, I would like to store the file size of the remote file and make... | diff --git a/remotezip.py b/remotezip.py
index a0a994c..f7302f0 100755
--- a/remotezip.py
+++ b/remotezip.py
@@ -5,7 +5,6 @@ from datetime import datetime
from itertools import tee
import requests
-from tabulate import tabulate
__all__ = ['RemoteIOError', 'RemoteZip']
@@ -254,17 +253,35 @@ class RemoteZip(zipf... |
gtsystem__python-remotezip-8 | [
{
"changes": {
"added_entities": [
"remotezip.py:RemoteIO.seekable"
],
"added_modules": null,
"edited_entities": [
"remotezip.py:RemoteIO.__init__",
"remotezip.py:RemoteIO.read"
],
"edited_modules": [
"remotezip.py:RemoteIO"
]
},
... | gtsystem/python-remotezip | a0be1dd3157a0118117786e4ce994777086e869e | Underlying stream is not seekable when entry is passed as file
Here is short code that cause error
```
import h5py
from remotezip import RemoteZip
def main():
remoteZip = RemoteZip(
'https://docs-assets.developer.apple.com/ml-research/datasets/hypersim/v1/scenes/ai_001_001.zip')
with rem... | diff --git a/README.md b/README.md
index 0c8ab8a..c20fa05 100644
--- a/README.md
+++ b/README.md
@@ -45,7 +45,9 @@ To download the content, this library rely on the `requests` module. The constru
Please look at the [zipfile](https://docs.python.org/3/library/zipfile.html#zipfile-objects) documentation for usage detail... |
gurumitts__pylutron-caseta-20 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"pylutron_caseta/smartbridge.py:Smartbridge._load_devices"
],
"edited_modules": [
"pylutron_caseta/smartbridge.py:Smartbridge"
]
},
"file": "pylutron_caseta/smartbridge.... | gurumitts/pylutron-caseta | 52dfa7000b7cd23bee586671d8ef839c932178b8 | Device name uses incomplete name.
https://github.com/gurumitts/pylutron-caseta/blob/52dfa7000b7cd23bee586671d8ef839c932178b8/pylutron_caseta/smartbridge.py#L321
Device name is assigned the `Name` value from the devices dict, however, the `FullyQualifiedName` would be more appropriate as the latest Lutron Caseta app ... | diff --git a/pylutron_caseta/smartbridge.py b/pylutron_caseta/smartbridge.py
index 05527d7..fd50d34 100755
--- a/pylutron_caseta/smartbridge.py
+++ b/pylutron_caseta/smartbridge.py
@@ -318,7 +318,7 @@ class Smartbridge:
if 'LocalZones' in device:
device_zone = device['LocalZones'][0]['href... |
gurumitts__pylutron-caseta-58 | [
{
"changes": {
"added_entities": [
"pylutron_caseta/smartbridge.py:_format_duration"
],
"added_modules": [
"pylutron_caseta/smartbridge.py:_format_duration"
],
"edited_entities": [
"pylutron_caseta/smartbridge.py:Smartbridge.set_value",
"pylutron_cas... | gurumitts/pylutron-caseta | 59dce12abe5865a86a1aadeb73de358cd56af438 | Lights lack SUPPORT_TRANSITION
I noticed that Lutron Caseta specificially lacks the SUPPORT_TRANSITION effects, yet the Lutron Caseta dimmers definitely seem to have support. | diff --git a/pylutron_caseta/smartbridge.py b/pylutron_caseta/smartbridge.py
index 0762eab..046ff08 100644
--- a/pylutron_caseta/smartbridge.py
+++ b/pylutron_caseta/smartbridge.py
@@ -1,7 +1,9 @@
"""Provides an API to interact with the Lutron Caseta Smart Bridge."""
import asyncio
+from datetime import timedelta
... |
gurumitts__pylutron-caseta-89 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "pylutron_caseta/__init__.py"
},
{
"changes": {
"added_entities": [
"pylutron_caseta/smartbridge.py:Smartbridge.set_tilt"
],
... | gurumitts/pylutron-caseta | 5c169cccc0d958400721997c18204585fb187a70 | Support for SerenaTiltOnlyWoodBlind
Please add support for SerenaTiltOnlyWoodBlind | diff --git a/CHANGELOG.md b/CHANGELOG.md
index ca2e5e9..235c1a7 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -9,6 +9,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
### Added
+- Support for Serena tilt-only wood blinds.
- New command line tools: lap-pair, leap-scan, leap.
... |
guykisel__inline-plz-129 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "inlineplz/linters/__init__.py"
},
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"inline... | guykisel/inline-plz | a7c89d5b65df2486ccf78f43fcffdc18dff76bd7 | rflint is running against all file types
```
Message:
Path: node_modules/stylint/node_modules/yargs/node_modules/cliui/node_modules/wordwrap/test/idleness.txt
Line number: 19
Content: set([u'rflint: Line is too long (exceeds 250 characters) (LineTooLong)'])
```
fyi @raphaelcastaneda | diff --git a/inlineplz/linters/__init__.py b/inlineplz/linters/__init__.py
index 16cce9f..5cafd13 100644
--- a/inlineplz/linters/__init__.py
+++ b/inlineplz/linters/__init__.py
@@ -175,13 +175,13 @@ LINTERS = {
'rflint': {
'install': [['pip', 'install', 'robotframework-lint']],
'help': ['rflint',... |
guykisel__inline-plz-228 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "inlineplz/linters/__init__.py"
},
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"inline... | guykisel/inline-plz | dc293c43edd1609683294660fb7c6a0840fb24ea | switch eslint to a different formatter
the json formatter breaks on long text: https://github.com/eslint/eslint/issues/5380
```
b'Invalid string length\nRangeError: Invalid string length\n at JSON.stringify (<anonymous>)\n at module.exports (/home/travis/build/guykisel/inline-plz/node_modules/eslint/lib/forma... | diff --git a/inlineplz/linters/__init__.py b/inlineplz/linters/__init__.py
index 7fede16..a0fd9a4 100644
--- a/inlineplz/linters/__init__.py
+++ b/inlineplz/linters/__init__.py
@@ -100,9 +100,9 @@ LINTERS = {
'install': [['npm', 'install', 'eslint']],
'help': [os.path.normpath('./node_modules/.bin/esl... |
guykisel__inline-plz-28 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "inlineplz/linters/__init__.py"
},
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"inline... | guykisel/inline-plz | 59cb7f9721ca3390fa31c48583e786e3728e8f1a | refactor prospector parser to use json formatter | diff --git a/inlineplz/linters/__init__.py b/inlineplz/linters/__init__.py
index f4b0a73..420508e 100644
--- a/inlineplz/linters/__init__.py
+++ b/inlineplz/linters/__init__.py
@@ -13,7 +13,7 @@ from inlineplz import parsers
LINTERS = {
'prospector': {
'install': ['pip', 'install', 'prospector'],
- ... |
guykisel__inline-plz-29 | [
{
"changes": {
"added_entities": [
"inlineplz/interfaces/github.py:GitHubInterface.format_message"
],
"added_modules": null,
"edited_entities": [
"inlineplz/interfaces/github.py:GitHubInterface.post_messages",
"inlineplz/interfaces/github.py:GitHubInterface.is_dup... | guykisel/inline-plz | 3cfa8f2c3f0fd814c105ca4d51f0727659a45fa8 | move message formatting logic from message module into interface modules | diff --git a/inlineplz/interfaces/github.py b/inlineplz/interfaces/github.py
index 005b8ff..4dd4397 100644
--- a/inlineplz/interfaces/github.py
+++ b/inlineplz/interfaces/github.py
@@ -26,14 +26,14 @@ class GitHubInterface(InterfaceBase):
def post_messages(self, messages):
messages_to_post = 0
fo... |
gvalkov__tornado-http-auth-8 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"tornado_http_auth.py:BasicAuthMixin.authenticate_user"
],
"edited_modules": [
"tornado_http_auth.py:BasicAuthMixin"
]
},
"file": "tornado_http_auth.py"
}
] | gvalkov/tornado-http-auth | 9eb225c1740fad1e53320b55d8d4fc6ab4ba58b6 | authenticate_user method raises binascii.Error when provided auth is not base64
`authenticate_user` method raises uncontrolled exception when the provided Authorization header is not base64. To reproduce the issue:
```
curl -i \
-H 'Accept:application/json' \
-H 'Authorization:Basic not_a_base64_string' \... | diff --git a/tornado_http_auth.py b/tornado_http_auth.py
index 2c6efbb..cbe74c8 100644
--- a/tornado_http_auth.py
+++ b/tornado_http_auth.py
@@ -209,8 +209,11 @@ class BasicAuthMixin(object):
raise self.SendChallenge()
auth_data = auth_header.split(None, 1)[-1]
- auth_data = base64.b64dec... |
gwpy__gwosc-75 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"gwosc/api.py:_fetch_allevents_event_json"
],
"edited_modules": [
"gwosc/api.py:_fetch_allevents_event_json"
]
},
"file": "gwosc/api.py"
}
] | gwpy/gwosc | 11cc61b842d7d75172745c8512869c7557cb3527 | Exact match when query for event time
In the latest version of the client, there is an error thrown when trying to get the GPS time of GW190521
```
from gwosc import datasets
t0 = datasets.event_gps('GW190521')
```
The error message says that the query for this event name gets multiple events (e.g. includes GW... | diff --git a/gwosc/api.py b/gwosc/api.py
index 5f00576..7c5d2ec 100644
--- a/gwosc/api.py
+++ b/gwosc/api.py
@@ -241,9 +241,17 @@ def _fetch_allevents_event_json(
return
return True
+ # match datasets
matched = list(filter(_match, allevents.items()))
names = set(x[1]["commonName"] f... |
h1alexbel__samples-filter-28 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"objects/pre_filter.py:PreFilter.prepare"
],
"edited_modules": [
"objects/pre_filter.py:PreFilter"
]
},
"file": "objects/pre_filter.py"
}
] | h1alexbel/samples-filter | c312133cefac45fdfc174f47632a947e3421e41b | input.py:36-39: Prepare files in /pipeline directory. We...
The puzzle `19-a9982129` from #19 has to be resolved:
https://github.com/h1alexbel/samples-filter/blob/10d01f5605ec49ca3d7986a779a2524a16df3575/objects/input.py#L36-L39
The puzzle was created by @rultor on 17-Apr-24.
Estimate: 25 minutes, role: DEV.
If... | diff --git a/.rultor.yml b/.rultor.yml
index 3098633..342bfaf 100644
--- a/.rultor.yml
+++ b/.rultor.yml
@@ -24,6 +24,9 @@ architect:
- h1alexbel
assets:
pypi.txt: h1alexbel/home#assets/pypi.txt
+install: |
+ python3 -m pip install --upgrade pip
+ pip install twine
merge:
script: |
make install test c... |
h2non__jsonpath-ng-62 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "jsonpath_ng/ext/string.py"
},
{
"changes": {
"added_entities": [
"jsonpath_ng/jsonpath.py:Root.__hash__",
"jsonpath_ng/jsonpath.... | h2non/jsonpath-ng | fefc4dd188c8acb45df0704fa694bba039cdc1e5 | Deprecation warning due to invalid escape sequences in Python 3.8
Deprecation warnings are raised due to invalid escape sequences in Python 3.8 . Below is a log of the warnings raised during compiling all the python files. Using raw strings or escaping them will fix this issue.
```
find . -iname '*.py' | xargs -P ... | diff --git a/README.rst b/README.rst
index 593d7b5..03d2dbc 100644
--- a/README.rst
+++ b/README.rst
@@ -203,9 +203,19 @@ Extensions
| | - ``$.objects[\\some_field,/other_field]`` |
+--------------+-----------------------------------------------+
| filter | - ``$.objects[?(@some_field > 5)]`` ... |
h2non__pook-111 | [
{
"changes": {
"added_entities": [
"src/pook/helpers.py:_get_key"
],
"added_modules": [
"src/pook/helpers.py:_get_key"
],
"edited_entities": [
"src/pook/helpers.py:trigger_methods"
],
"edited_modules": [
"src/pook/helpers.py:trigger_metho... | h2non/pook | fac40e9f571152ba09bc16954548ce51d590ccea | Cannot pass `param`, `param_exists` or `params` kwarg to `Mock` constructor
Passing any of the query parameter settings to the `Mock` constructor results in the following error:
```
> pook.get(url="https://example.com", params={"a": "b"})
src/pook/api.py:342: in get
return mock(url, method="GET", **kw)
src/p... | diff --git a/src/pook/helpers.py b/src/pook/helpers.py
index 193c2c9..6af0685 100644
--- a/src/pook/helpers.py
+++ b/src/pook/helpers.py
@@ -1,8 +1,24 @@
+import re
+
from inspect import ismethod, isfunction
from .exceptions import PookInvalidArgument
-def trigger_methods(instance, args):
+reply_response_re = re.... |
h2non__pook-113 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": null,
"edited_modules": null
},
"file": "src/pook/matchers/api.py"
},
{
"changes": {
"added_entities": [
"src/pook/matchers/base.py:ExistsMatcher.request_attr",
"src/poo... | h2non/pook | ff30ca754b7569245640e593ffc7389c91a3e500 | `param_exists` fails when requested query param has no value
The following should work but does not:
```
pook.get("https://example.com").param_exists("x")
urlopen("https://example.com/?x")
```
This is because the query param matcher returns `false` here:
https://github.com/h2non/pook/blob/fac40e9f571152ba09... | diff --git a/src/pook/matchers/api.py b/src/pook/matchers/api.py
index 7bc0fb2..c1cfcf2 100644
--- a/src/pook/matchers/api.py
+++ b/src/pook/matchers/api.py
@@ -1,9 +1,9 @@
from .base import BaseMatcher
from .url import URLMatcher
from .body import BodyMatcher
-from .query import QueryMatcher
+from .query import Que... |
h2non__pook-129 | [
{
"changes": {
"added_entities": [
"src/pook/engine.py:Engine.no_matches"
],
"added_modules": null,
"edited_entities": [
"src/pook/engine.py:Engine.match"
],
"edited_modules": [
"src/pook/engine.py:Engine"
]
},
"file": "src/pook/engine.py... | h2non/pook | ef5bb1ade60aed66aaccb776a0fc9eb16d58bb5a | Provide a more helpful error when `times` is exceeded on a mock
I've ran into the issue with repeated request and the default `times: 1` being exceeded quite a few times and it has confused me every time. Could pook give a better error message when a mock has matched but `times` is exceeded. For example:
```py
mock... | diff --git a/pyproject.toml b/pyproject.toml
index e1d39cc..ae086b8 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -60,9 +60,6 @@ extra-dependencies = [
"urllib3~=1.24",
"httpx~=0.26.0",
- # aiohttp depends on multidict, so we can't test aiohttp until
- # https://github.com/aio-libs/multidict/iss... |
h2non__pook-83 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"pook/assertion.py:equal",
"pook/assertion.py:matches"
],
"edited_modules": [
"pook/assertion.py:equal",
"pook/assertion.py:matches"
]
},
"file": "pook/a... | h2non/pook | 6344c4d53b8059f9d2bfc46877a0beb8d8e85edf | aiohttp mock only works when using request methods as context managers, but not when awaited
Hello, thank you for the lovely project! It makes HTTP mocking really pleasant to work with.
I noticed a small issue with the implementation of the aiohttp mock: it appears to only work when using the request methods as cont... | diff --git a/.travis.yml b/.travis.yml
index 27d4b54..4f826ae 100644
--- a/.travis.yml
+++ b/.travis.yml
@@ -1,18 +1,16 @@
language: python
python:
- - 2.7
- - 3.4
- 3.5
- 3.6
- 3.7
- 3.8
+ - 3.9
+ - 3.10
- pypy
- pypy3
allow_failures:
- - python: 2.7
- - python: 3.4
- python: pypy
... |
h2non__pook-90 | [
{
"changes": {
"added_entities": [
"pook/headers.py:to_string_value"
],
"added_modules": [
"pook/headers.py:to_string_value"
],
"edited_entities": [
"pook/headers.py:HTTPHeaderDict.__getitem__",
"pook/headers.py:HTTPHeaderDict.extend",
"pook/... | h2non/pook | 9bb2eaecf62d8dd048973690281c12da00e434ce | pook can't handle binary headers
If a response header is binary, for example something like `('Content-Type', b'application/pdf')`, when pook tries to iterate over the headers, it is expecting a string and throws an error. The problem is in `HTTPHeaderDict.itermerged`. | diff --git a/pook/headers.py b/pook/headers.py
index ac20bd2..9119d77 100644
--- a/pook/headers.py
+++ b/pook/headers.py
@@ -3,6 +3,8 @@ try:
except ImportError:
from collections import Mapping, MutableMapping
+from base64 import b64encode
+
class HTTPHeaderDict(MutableMapping):
"""
@@ -53,7 +55,7 @@ cl... |
h2non__pook-97 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"pook/assertion.py:equal",
"pook/assertion.py:matches"
],
"edited_modules": [
"pook/assertion.py:equal",
"pook/assertion.py:matches"
]
},
"file": "pook/a... | h2non/pook | 253ad95c518e6c6b3dcde66a25fbd6775b6378ba | `HeadersMatcher: 're.Pattern' object has no attribute 'decode'` with pook 1.2.0
Not sure if actionable, but after upgrading from 1.1.1 to 1.2.0, I see this new error on a test where pook can not match on the request headers any more it seems. No additional details or stack trace unfortunately.
```
pook error!
=>... | diff --git a/pook/assertion.py b/pook/assertion.py
index 493b065..152f1e6 100644
--- a/pook/assertion.py
+++ b/pook/assertion.py
@@ -30,8 +30,6 @@ def equal(x, y):
"""
return test_case().assertEqual(x, y) or True
- assert x == y
-
def matches(x, y, regex_expr=False):
"""
@@ -52,9 +50,6 @@ def mat... |
h2non__pook-98 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"pook/interceptors/http.py:HTTPClientInterceptor._on_request"
],
"edited_modules": [
"pook/interceptors/http.py:HTTPClientInterceptor"
]
},
"file": "pook/interceptors/ht... | h2non/pook | 43409d3614b32b1e70cde92fbb0d815b99da4d2f | Issues using with urllib
When using with urllib an exception is throw as response doesn't have a code attribute. Uncovered this while trying to mock a prometheus push gateway endpoint with prometheus client library. Simplified code snippet below:
Exception raised:
```
self = <urllib.request.HTTPErrorProcessor obje... | diff --git a/pook/api.py b/pook/api.py
index a05c9b4..b03fbe4 100644
--- a/pook/api.py
+++ b/pook/api.py
@@ -205,7 +205,7 @@ def use(network=False):
_engine = Engine(network=network)
_engine.activate()
- # Yield enfine to be used by the context manager
+ # Yield engine to be used by the context manage... |
h5io__h5io-79 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"h5io/_h5io.py:_triage_write",
"h5io/_h5io.py:_triage_read"
],
"edited_modules": [
"h5io/_h5io.py:_triage_write",
"h5io/_h5io.py:_triage_read"
]
},
"file... | h5io/h5io | 1c986469908249b9ae2cabc56d9f50b57c6987aa | Should it be possible to store a class?
I'm starting to feel like I might have misunderstood and be reaching a bit here; is it reasonable to use `h5io` for storing a class? E.g.
```python
class MyClass:
@classmethod
def foo(cls):
return 42
import h5io
h5io.write_hdf5(
fname="stuff.h5",... | diff --git a/h5io/_h5io.py b/h5io/_h5io.py
index b389a5c..3baed51 100644
--- a/h5io/_h5io.py
+++ b/h5io/_h5io.py
@@ -8,6 +8,7 @@ import importlib
import json
import sys
import tempfile
+from inspect import isclass
from io import UnsupportedOperation
from os import path as op
from pathlib import PurePath
@@ -230,6... |
haddocking__arctic3d-111 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/arctic3d/cli.py:main"
],
"edited_modules": [
"src/arctic3d/cli.py:main"
]
},
"file": "src/arctic3d/cli.py"
},
{
"changes": {
"added_entities": null,
... | haddocking/arctic3d | e8255d64aa795aa2d959296b3991509bbe273266 | add run directory as input argument
this will be useful when excluding stuff. keep the default behaviour when no run_dir is selected by user | diff --git a/src/arctic3d/cli.py b/src/arctic3d/cli.py
index ea51e99..cb6cded 100644
--- a/src/arctic3d/cli.py
+++ b/src/arctic3d/cli.py
@@ -56,6 +56,11 @@ argument_parser.add_argument(
help="",
)
+argument_parser.add_argument(
+ "--run_dir",
+ help="directory where to store the run",
+)
+
def load_arg... |
haddocking__arctic3d-123 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/arctic3d/cli.py:main"
],
"edited_modules": [
"src/arctic3d/cli.py:main"
]
},
"file": "src/arctic3d/cli.py"
},
{
"changes": {
"added_entities": null,
... | haddocking/arctic3d | b4b08d38fe02314a4557c0ffbc14b391e692b8b0 | introduce chain_to_use input parameter
if the user gives a `pdb_to_use` parameter it can happen that the same pdb is associated to multiple chains. We want to let the user pick the right chain as well. | diff --git a/src/arctic3d/cli.py b/src/arctic3d/cli.py
index 7c615d5..eec983a 100644
--- a/src/arctic3d/cli.py
+++ b/src/arctic3d/cli.py
@@ -57,8 +57,8 @@ argument_parser.add_argument(
)
argument_parser.add_argument(
- "--pdb_renum_db",
- help="path to a local version of the PDBrenum database",
+ "--chain_... |
haddocking__arctic3d-136 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/arctic3d/cli.py:main"
],
"edited_modules": [
"src/arctic3d/cli.py:main"
]
},
"file": "src/arctic3d/cli.py"
},
{
"changes": {
"added_entities": null,
... | haddocking/arctic3d | 2d129c11280765ffdaf43c41bab4fea32532b8bb | address stochiometry issue by increasing the number of interfaces
when the stochiometry of the complex is not 1:1, the uniprot ID-uniprot ID pairwise interface takes into account geometrically different interfaces, thus leading to unfeasible predictions. We should take into account pdb and chain information in the foll... | diff --git a/src/arctic3d/cli.py b/src/arctic3d/cli.py
index dc7ad7c..c325584 100644
--- a/src/arctic3d/cli.py
+++ b/src/arctic3d/cli.py
@@ -76,6 +76,12 @@ argument_parser.add_argument(
help=".json file containing the pdb data",
)
+argument_parser.add_argument(
+ "--full",
+ help="consider full uniprot-pd... |
haddocking__arctic3d-181 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/arctic3d/cli_resclust.py:main"
],
"edited_modules": [
"src/arctic3d/cli_resclust.py:main"
]
},
"file": "src/arctic3d/cli_resclust.py"
},
{
"changes": {
... | haddocking/arctic3d | e6fd4a88dfeb9ce8b7bf0dd104f5c513658cf57e | add maxclust criterion in resclust cli
adding the `maxclust` criterion can be useful when we already know that we want to divide the structure in n clusters of residues | diff --git a/src/arctic3d/cli_resclust.py b/src/arctic3d/cli_resclust.py
index d5f3b12..fa7e31c 100644
--- a/src/arctic3d/cli_resclust.py
+++ b/src/arctic3d/cli_resclust.py
@@ -14,6 +14,10 @@ Input arguments:
`threshold` : the number to be used as threshold for hierarchical clustering.
`chain` : the chain I... |
haddocking__arctic3d-256 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/arctic3d/cli.py:main"
],
"edited_modules": [
"src/arctic3d/cli.py:main"
]
},
"file": "src/arctic3d/cli.py"
},
{
"changes": {
"added_entities": null,
... | haddocking/arctic3d | 9d82a31b52e0fa7a29a44ef0c6548ce14315fda9 | return cif_f in get_maxint_pdb
`get_maxint_pdb` function should return the updated cif file, so that we can a) check its presence in the tests b) delete it in the tests | diff --git a/src/arctic3d/cli.py b/src/arctic3d/cli.py
index cc265bf..7e3dfe2 100644
--- a/src/arctic3d/cli.py
+++ b/src/arctic3d/cli.py
@@ -260,7 +260,7 @@ def main(
else:
pdb_data_path = None
# get best pdb
- pdb_f, filtered_interfaces = get_best_pdb(
+ ... |
haddocking__arctic3d-304 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/arctic3d/modules/pdb.py:fetch_pdb_files",
"src/arctic3d/modules/pdb.py:validate_api_hit",
"src/arctic3d/modules/pdb.py:get_best_pdb"
],
"edited_modules": [
"src/a... | haddocking/arctic3d | f64dd5f2c627e5a4ce2249f73cb416103fec2e3e | allow for bad pdb structures
Users should have the freedom to include pdb files with poor resolution in the search. We could say that a pdb file provided in the `pdb_to_use` field does not have to respect any of the resolution-coverage criteria. An example for this is uniprot ID F1PJP5, for which no PDB respects the re... | diff --git a/src/arctic3d/modules/pdb.py b/src/arctic3d/modules/pdb.py
index 096f98b..3dfad7e 100644
--- a/src/arctic3d/modules/pdb.py
+++ b/src/arctic3d/modules/pdb.py
@@ -401,14 +401,15 @@ def fetch_pdb_files(pdb_to_fetch, uniprot_id):
for hit in pdb_to_fetch:
pdb_id = hit["pdb_id"]
chain_id = ... |
haddocking__arctic3d-310 | [
{
"changes": {
"added_entities": null,
"added_modules": null,
"edited_entities": [
"src/arctic3d/cli_localise.py:main"
],
"edited_modules": [
"src/arctic3d/cli_localise.py:main"
]
},
"file": "src/arctic3d/cli_localise.py"
},
{
"changes": {
... | haddocking/arctic3d | c3735ede98a890e67b0b933be0d75ba253aad2fd | create plotly barplot in localise CLI
plotly barplot is better for the web service | diff --git a/poetry.lock b/poetry.lock
index 5cf15e9..b9469db 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -1,9 +1,10 @@
-# This file is automatically @generated by Poetry 1.5.1 and should not be changed by hand.
+# This file is automatically @generated by Poetry and should not be changed by hand.
[[package]]
name... |
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