remove unnecessary dependencies

dsehnal · dsehnal · commit 9db6fd000c34 · 2022-08-16T18:55:34.000+02:00
diff --git a/README.md b/README.md
@@ -1,3 +1,9 @@
+[![License](http://img.shields.io/badge/license-MIT-blue.svg?style=flat)](./LICENSE)
+
+# CIFTools Python
+
+A library for reading and writing (Binary)CIF files in Python.
+
 ## Linting
 
 ```
diff --git a/ciftools/cif_format/binary/column_types/undefined_cif_column.py b/ciftools/cif_format/binary/column_types/undefined_cif_column.py
@@ -1,11 +1,8 @@
-from __future__ import annotations # supposed to be in python 3.10 but reverted; maybe in python 3.11?
-
 from ciftools.cif_format.base import CIFColumnBase
 from ciftools.cif_format.value_presence import ValuePresenceEnum
-from pydantic import BaseModel
 
 
-class UndefinedCIFColumn(CIFColumnBase, BaseModel):
+class UndefinedCIFColumn(CIFColumnBase):
 def is_defined(self) -> bool:
 return False
 
diff --git a/requirements.txt b/requirements.txt
@@ -0,0 +1,2 @@
+numpy >= 1.11.1
+msgpack >= 1.0.3
diff --git a/setup.py b/setup.py
@@ -8,5 +8,5 @@
 author_email="souoravi@gmail.com",
 description="A library for handling (Binary)CIF files.",
 packages=["ciftools"],
- install_requires=["numpy >= 1.11.1", "msgpack >= 1.0.3", "requests >= 2.27.1", "pydantic >= 1.9.0"],
+ install_requires=["numpy >= 1.11.1", "msgpack >= 1.0.3"],
 )
diff --git a/tests/_decoding.py b/tests/_decoding.py
@@ -1,7 +1,8 @@
 import unittest
+import urllib.request
 
 import msgpack
-import requests
+
 from ciftools.cif_format.binary.file import BinaryCIFFile
 from ciftools.cif_format.value_presence import ValuePresenceEnum
 
@@ -11,7 +12,7 @@ def test(self):
 # TODO: set assert expectations
 
 print("mmCIF test")
- data = requests.get("https://models.rcsb.org/1tqn.bcif").content
+ data = urllib.request.urlopen("https://models.rcsb.org/1tqn.bcif").read()
 parsed = BinaryCIFFile.loads(data, lazy=False)
 
 atom_site = parsed["1TQN"].atom_site
@@ -32,9 +33,9 @@ def test(self):
 # print([[f"_{c.name}.{f}" for f in c.field_names] for c in parsed[0].categories.values()])
 
 print("Volume Data test")
- data = requests.get(
+ data = urllib.request.urlopen(
 "https://ds.litemol.org/x-ray/1tqn/box/-22.367,-33.367,-21.634/-7.106,-10.042,-0.937?detail=1"
- ).content
+ ).read()
 parsed = BinaryCIFFile.loads(msgpack.loads(data))
 
 print([b.header for b in parsed.data_blocks])

-Original file line number
+Diff line change
@@ @@ -1,11 +1,8 @@ @@
 -from __future__ importannotations# supposed to be in python 3.10 but reverted; maybe in python 3.11?
+-
 fromciftools.cif_format.baseimportCIFColumnBase
 fromciftools.cif_format.value_presenceimportValuePresenceEnum
 -frompydanticimportBaseModel
 -classUndefinedCIFColumn(CIFColumnBase, BaseModel):
 +classUndefinedCIFColumn(CIFColumnBase):
 defis_defined(self) ->bool:
 returnFalse
Original file line number	Diff line number	Diff line change
`@@ -8,5 +8,5 @@`
`8`	`8`	`author_email="[email protected]",`
`9`	`9`	`description="A library for handling (Binary)CIF files.",`
`10`	`10`	`packages=["ciftools"],`
`11`		`-install_requires=["numpy >= 1.11.1", "msgpack >= 1.0.3", "requests >= 2.27.1", "pydantic >= 1.9.0"],`
	`11`	`+install_requires=["numpy >= 1.11.1", "msgpack >= 1.0.3"],`
`12`	`12`	`)`
-Original file line number
+Diff line change
@@ @@ -1,7 +1,8 @@ @@
 importunittest
 +importurllib.request
 importmsgpack
 -importrequests
++
 fromciftools.cif_format.binary.fileimportBinaryCIFFile
 fromciftools.cif_format.value_presenceimportValuePresenceEnum
 # TODO: set assert expectations
 print("mmCIF test")
 -data=requests.get("https://models.rcsb.org/1tqn.bcif").content
 +data=urllib.request.urlopen("https://models.rcsb.org/1tqn.bcif").read()
 parsed=BinaryCIFFile.loads(data, lazy=False)
 atom_site=parsed["1TQN"].atom_site
 # print([[f"_{c.name}.{f}" for f in c.field_names] for c in parsed[0].categories.values()])
 print("Volume Data test")
 -data=requests.get(
 +data=urllib.request.urlopen(
 "https://ds.litemol.org/x-ray/1tqn/box/-22.367,-33.367,-21.634/-7.106,-10.042,-0.937?detail=1"
 - ).content
 + ).read()
 parsed=BinaryCIFFile.loads(msgpack.loads(data))
 print([b.headerforbinparsed.data_blocks])