From 3fa1104ff72aca864dddce5d804b3d7d7a2aa8a7 Mon Sep 17 00:00:00 2001
From: Alina Molkentin <alina.molkentin@studium.uni-hamburg.de>
Date: Sat, 27 Nov 2021 14:05:01 +0100
Subject: [PATCH] =?UTF-8?q?neue=20Input=20Funktion=20f=C3=BCr=20die=20Test?=
=?UTF-8?q?s?=
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
---
verarbeitung/Processing.py | 33 +++++----
.../__pycache__/input_fj.cpython-36.pyc | Bin 0 -> 4299 bytes
.../__pycache__/input_test.cpython-36.pyc | Bin 0 -> 2359 bytes
.../__pycache__/json_demo.cpython-36.pyc | Bin 0 -> 865 bytes
verarbeitung/input_test.py | 63 ++++++++++++++++++
verarbeitung/json_demo.py | 6 +-
verarbeitung/json_text.json | 2 +-
7 files changed, 87 insertions(+), 17 deletions(-)
create mode 100644 verarbeitung/__pycache__/input_fj.cpython-36.pyc
create mode 100644 verarbeitung/__pycache__/input_test.cpython-36.pyc
create mode 100644 verarbeitung/__pycache__/json_demo.cpython-36.pyc
create mode 100644 verarbeitung/input_test.py
diff --git a/verarbeitung/Processing.py b/verarbeitung/Processing.py
index 5cfeba2..89f1ef2 100644
--- a/verarbeitung/Processing.py
+++ b/verarbeitung/Processing.py
@@ -18,6 +18,7 @@ import requests as req
import sys
from pathlib import Path
from input_fj import input
+from input_test import input_test_func
from json_demo import output_to_json
# adds every publication from input list to graph structure
@@ -26,7 +27,7 @@ from json_demo import output_to_json
# TO-DO: Listenelemente auf Korrektheit überprüfen
def initialize_nodes_list(doi_input_list):
for pub_doi in doi_input_list:
- pub = input(pub_doi)
+ pub = input_test_func(pub_doi)
not_in_nodes = True
for node in nodes: # checks if a pub is already in nodes
if (pub.doi_url == node.doi_url):
@@ -34,6 +35,7 @@ def initialize_nodes_list(doi_input_list):
break
if (not_in_nodes):
nodes.append(pub)
+ pub.group = "input"
else:
doi_input_list.remove(pub_doi)
@@ -42,7 +44,7 @@ def initialize_nodes_list(doi_input_list):
# adds a node for every publication unknown
# adds edges for citations between publications
def create_graph_structure_citations(pub, search_height, search_height_max):
- for citation in pub._citations:
+ for citation in pub.citations:
not_in_nodes = True
for node in nodes:
# checks every citation for duplication
@@ -51,7 +53,7 @@ def create_graph_structure_citations(pub, search_height, search_height_max):
break
if (not_in_nodes):
if (search_height <= search_height_max):
- #citation.group = "citation"
+ citation.group = "height"
nodes.append(citation)
edges.append([pub.doi_url,citation.doi_url])
@@ -64,7 +66,7 @@ def create_graph_structure_citations(pub, search_height, search_height_max):
# adds a node for every publication unknown
# adds edges for references between publications
def create_graph_structure_references(pub, search_depth, search_depth_max):
- for reference in pub._references:
+ for reference in pub.references:
not_in_nodes = True
for node in nodes:
# checks every reference for duplication
@@ -73,7 +75,7 @@ def create_graph_structure_references(pub, search_depth, search_depth_max):
break
if (not_in_nodes):
if (search_depth <= search_depth_max):
- #reference.group = "reference"
+ reference.group = "depth"
nodes.append(reference)
edges.append([reference.doi_url,pub.doi_url])
@@ -93,13 +95,13 @@ def process_citations_rec(doi_citations, search_height, search_height_max):
# create class object for every citation from list
for pub_doi in doi_citations:
- pub = input(pub_doi)
+ pub = input_test_func(pub_doi)
create_graph_structure_citations(pub, search_height, search_height_max)
# If the maximum height has not yet been reached, all references from the publication
# are written to an array and the function is called again with this array.
if (search_height < search_height_max):
citations_list = []
- for citation in pub._citations:
+ for citation in pub.citations:
# currently only the references with acs are stored in the URL, because we can't
# extract the info from other sources.
@@ -121,13 +123,13 @@ def process_references_rec(doi_references, search_depth, search_depth_max):
# create class object for every citation from list
for pub_doi in doi_references:
- pub = input(pub_doi)
+ pub = input_test_func(pub_doi)
create_graph_structure_references(pub, search_depth, search_depth_max)
# If the maximum depth has not yet been reached, all references from the publication
# are written to an array and the function is called again with this array.
if (search_depth < search_depth_max):
references_list = []
- for reference in pub._references:
+ for reference in pub.references:
# currently only the references with acs are stored in the URL, because we can't
# extract the info from other sources.
@@ -173,9 +175,9 @@ def process_main(doi_input_list, search_height, search_depth):
# program test, because there is no connection to the input yet.
def test_print():
arr = []
- arr.append('https://pubs.acs.org/doi/10.1021/acs.jcim.9b00249')
- arr.append('https://pubs.acs.org/doi/10.1021/acs.jcim.9b00249')
- arr.append('https://doi.org/10.1021/acs.jmedchem.0c01332')
+ #arr.append('https://pubs.acs.org/doi/10.1021/acs.jcim.9b00249')
+ #arr.append('https://pubs.acs.org/doi/10.1021/acs.jcim.9b00249')
+ #arr.append('https://doi.org/10.1021/acs.jmedchem.0c01332')
#arr.append('https://doi.org/10.1021/acs.jcim.0c00741')
#arr.append('https://doi.org/10.1021/ci700007b')
@@ -183,6 +185,11 @@ def test_print():
#url = sys.argv[1]
#arr.append[url]
+ arr.append('doi1')
+ #arr.append('doi2')
+ #arr.append('doi3')
+
+
nodes,edges = process_main(arr,1,1)
print("Knoten:\n")
@@ -192,5 +199,5 @@ def test_print():
for edge in edges:
print(edge,"\n")
-#test_print()
+test_print()
\ No newline at end of file
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diff --git a/verarbeitung/input_test.py b/verarbeitung/input_test.py
new file mode 100644
index 0000000..79b00b1
--- /dev/null
+++ b/verarbeitung/input_test.py
@@ -0,0 +1,63 @@
+class Publication:
+ def __init__(self, doi_url, title, contributors, journal, publication_date, references, citations, group):
+ self.doi_url = doi_url
+ self.title = title
+ self.contributors = contributors
+ self.journal = journal
+ self.publication_date = publication_date
+ if references is None:
+ self.references = []
+ else:
+ self.references = ref(references)
+ if citations is None:
+ self.citations = []
+ else:
+ self.citations = cit(citations)
+ self.group = group
+
+
+class Citation:
+ def __init__(self,doi_url, title, contributors, journal, publication_date):
+ self.doi_url = doi_url
+ self.title = title
+ self.contributors = contributors
+ self.journal = journal
+ self.publication_date = publication_date
+
+class Reference:
+ def __init__(self,doi_url, title, contributors, journal, publication_date):
+ self.doi_url = doi_url
+ self.title = title
+ self.contributors = contributors
+ self.journal = journal
+ self.publication_date = publication_date
+
+def input_test_func(pub_doi):
+ for array in list_of_arrays:
+ if pub_doi == array[0]:
+ pub = Publication(array[0], array[1], array[2], array[3], array[4], array[5], array[6], array[7])
+ return pub
+
+
+def cit(list_doi):
+ cits = []
+ for doi_url in list_doi:
+ for array in list_of_arrays:
+ if doi_url == array[0]:
+ cits.append(Citation(array[0], array[1], array[2], array[3], array[4]))
+ return cits
+
+def ref(list_doi):
+ refs = []
+ for doi_url in list_doi:
+ for array in list_of_arrays:
+ if doi_url == array[0]:
+ refs.append(Citation(array[0], array[1], array[2], array[3], array[4]))
+ return refs
+
+
+beispiel1 = ['doi1', 'title1', ['contributor1'], 'journal1', 'date1', ['doi2'], ['doi3'], '']
+beispiel2 = ['doi2', 'title2', ['contributor2'], 'journal2', 'date2', [], ['doi1'], '']
+beispiel3 = ['doi3', 'title3', ['contributor3'], 'journal3', 'date3', ['doi1'], [], '']
+
+list_of_arrays = [beispiel1, beispiel2, beispiel3]
diff --git a/verarbeitung/json_demo.py b/verarbeitung/json_demo.py
index 362d064..7341560 100644
--- a/verarbeitung/json_demo.py
+++ b/verarbeitung/json_demo.py
@@ -10,10 +10,10 @@ def output_to_json(V,E):
new_dict = dict()
new_dict["name"] = node.title
new_dict["author"] = node.contributors
- #new_dict["year"] = node.publication_date
- #new_dict["journal"] = node.journal
+ new_dict["year"] = node.publication_date
+ new_dict["journal"] = node.journal
new_dict["doi"] = node.doi_url
- #new_dict["group"] = node.group
+ new_dict["group"] = node.group
list_of_node_dicts.append(new_dict)
for edge in E:
new_dict_2 = dict()
diff --git a/verarbeitung/json_text.json b/verarbeitung/json_text.json
index 2e6c8fa..683e49f 100644
--- a/verarbeitung/json_text.json
+++ b/verarbeitung/json_text.json
@@ -1 +1 @@
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