读取networkx GML时出现UnicodeDecodeError
[英]UnicodeDecodeError while reading networkx GML
问题描述
I am trying to read a GML file using 
我正在尝试使用读取GML文件
nx.read_gml('test.gml')
I checked the networkx read_gml() documentation. 我检查了networkx read_gml（）文档。 It is said that The GML specification says that files should be ASCII encoded , so when I write the GML, I use the following 据说GML规范说文件应该是ASCII编码的 ，所以当我编写GML时，我使用以下代码
reload(sys)
sys.setdefaultencoding('ascii')
nx.write_gml(g, fname + '.gml')
The content of test.gml is given below. 下面给出了test.gml的内容。
graph [
name "Country-based Relationships Graph"
node [
id 0
label "1-14014874"
ned 0
ntype 1
name "3A/63 KIRRIBILLI AVENUE; KIRRIBILLI; AUSTRALIA"
]
node [
id 1
label "2-12097019"
name "ANTHONY WADDELL LATIMER"
ned 0
ntype 2
]
node [
id 2
label "2-12201665"
name "QUEENSLAND M M PTY LTD"
ned 0
ntype 2
]
node [
id 3
label "1-14007784"
ned 0
ntype 1
name "2/15 MOSMAN STREET MOSMAN 2088"
]
node [
id 4
label "1-14007787"
ned 0
ntype 1
name "2/19 SEABREEZE PLACE THIRROUL NSW 2515"
]
node [
id 5
label "4-10124385"
name "SOUTH AMERICAN FERRO METALS LIMITED"
ned 0
ntype 4
]
node [
id 6
label "2-12100977"
name "MARTIN AYLMER GREEN"
ned 0
ntype 2
]
node [
id 7
label "1-14023939"
ned 0
ntype 1
name "9/4 BILLYARD AVENUE; ELIZABETH BAY; AUSTRALIA"
]
node [
id 8
label "1-14017022"
ned 0
ntype 1
name ""47/228 MOORE PARKE ROAD, PADDINGTON""
]
node [
id 9
label "2-12095303"
name "GOLDFIND HOLDINGS PTY LTD"
ned 0
ntype 2
]
node [
id 10
label "1-14019821"
ned 0
ntype 1
name ""5 RISORTA AVENUE, ST IVES 2075 AUSTRALIA""
]
node [
id 11
label "1-14001076"
ned 0
ntype 1
name ""10B CONWAY AVENUE, ROSE BAY NSW 2028""
]
node [
id 12
label "2-12195748"
name "DAVID GRAHAM GRAY"
ned 0
ntype 2
]
node [
id 13
label "2-12220072"
name "GEORGE KOTEFSKI"
ned 0
ntype 2
]
node [
id 14
label "2-12121150"
name "SINO EUROPE INVESTMENTS LIMITED"
ned 0
ntype 2
]
node [
id 15
label "2-12129794"
name "STEPHEN JOHN TURNER"
ned 1
ntype 2
]
node [
id 16
label "1-14003998"
ned 0
ntype 1
name "149 Hudson Parade; Clareville; NSW 2107; Australia"
]
node [
id 17
label "4-10110003"
ned 0
ntype 4
name "BUNSWICK INVESTMENTS LIMITED"
]
node [
id 18
label "1-14014446"
ned 0
ntype 1
name ""373 EDINBURGH RD, CASTLECRAG NSW""
]
node [
id 19
label "1-14024552"
ned 0
ntype 1
name ""9 BARRACK STREET, SYDNEY NSW 2000""
]
node [
id 20
label "1-14082647"
name "UNIT 4/281 O'SULLIVAN ROAD BELLEVUE HILL NSW 2023"
ned 0
ntype 1
]
node [
id 21
label "1-14002851"
ned 0
ntype 1
name "12 CHERUB CLOSE; BALLUJARA; WA 6066 AUSTRALIA"
]
node [
id 22
label "2-12220071"
name "THE KOGOS FAMILY TRUST"
ned 0
ntype 2
]
node [
id 23
label "2-12171442"
name "MICHAEL JOHN DOYLE"
ned 0
ntype 2
]
node [
id 24
label "2-12171441"
name "GEORGINA TSOUTSOURAS"
ned 0
ntype 2
]
node [
id 25
label "2-12171440"
name "TERESA ODETTE VIEIRA GARCES"
ned 0
ntype 2
]
node [
id 26
label "2-12171465"
name "South American Ferro Metals Limited (Formerly “Riviera Resources Limited”"
ned 0
ntype 2
]
node [
id 27
label "2-12171464"
name "MP CAPITAL PTY LTD"
ned 0
ntype 2
]
node [
id 28
label "2-12098018"
name "Burton Securities Limited"
ned 0
ntype 2
]
node [
id 29
label "2-12171461"
name "PAUL BOURS"
ned 0
ntype 2
]
node [
id 30
label "2-12129946"
name "STEPHEN JOHN TURNER"
ned 1
ntype 2
]
node [
id 31
label "2-12171463"
name "BARRY ROBERT MCINNES"
ned 0
ntype 2
]
node [
id 32
label "2-12171443"
name "LORI MARGARET RAYNER"
ned 0
ntype 2
]
node [
id 33
label "2-12171502"
name "Afro Pacific Capital Pty Limited"
ned 0
ntype 2
]
node [
id 34
label "2-12129947"
name "STEPHEN JOHN TURNER"
ned 1
ntype 2
]
node [
id 35
label "4-10116684"
name "SUPER ALLOYS AFRICA LIMITED"
ned 0
ntype 4
]
node [
id 36
label "4-10204113"
ned 0
ntype 4
name "African Chrome Limited"
]
node [
id 37
label "1-14002991"
ned 0
ntype 1
name ""12 LAVONI STREET, BALMORAL BEACH 2088""
]
node [
id 38
label "1-14063550"
name "PO BOX 6215; SOUTH YARRA; VICTORIA; 3141 AUSTRALIA"
ned 0
ntype 1
]
node [
id 39
label "1-14063476"
ned 0
ntype 1
name "PO BOX 6009; QUEANBEYAN; N.S.W. 2620 AUSTRALIA"
]
node [
id 40
label "2-12070744"
name "GARRY JACK COHEN"
ned 0
ntype 2
]
node [
id 41
label "2-13010180"
name "ALAN DAVID DOYLE"
ned 1
ntype 2
]
node [
id 42
label "1-14021460"
ned 0
ntype 1
name "6 Wray Street; Batemans Bay; NSW 2536; Australia"
]
node [
id 43
label "2-12117437"
name "IAN DONALD PRATT"
ned 0
ntype 2
]
node [
id 44
label "2-12110721"
name "ALAN DAVID DOYLE"
ned 0
ntype 2
]
node [
id 45
label "2-12108471"
name "MEGAN BLACK"
ned 0
ntype 2
]
node [
id 46
label "1-14023938"
ned 0
ntype 1
name "9/4 BILLYARD AVENUE; ELIZABETH BAY; AUASTRALIA"
]
node [
id 47
label "4-10204047"
ned 0
ntype 4
name "ASIA ROCK HOLDINGS LTD."
]
node [
id 48
label "2-12117663"
name "JOHN LYSTER ABEL"
ned 0
ntype 2
]
node [
id 49
label "2-12107354"
name "W J K INVESTMENTS PTY LTD"
ned 0
ntype 2
]
node [
id 50
label "2-12121288"
name "Barry Robert Mcinnes Superannuation Fund"
ned 0
ntype 2
]
node [
id 51
label "2-12115776"
name "KELLY LEANNE BINDON"
ned 0
ntype 2
]
node [
id 52
label "4-10128856"
ned 0
ntype 4
name "ASD SERVICES LIMITED"
]
node [
id 53
label "2-12196030"
name "Patermat Pty Limited"
ned 0
ntype 2
]
node [
id 54
label "1-14017203"
ned 0
ntype 1
name "486 THE RIDGE ROAD; SURF BEACH; NSW 2536"
]
node [
id 55
label "1-14013008"
ned 0
ntype 1
name "30 JAPONICA AVE WEST EPPING 2121"
]
node [
id 56
label "2-12219691"
name "ALAN DAVID DOYLE"
ned 1
ntype 2
]
node [
id 57
label "2-12171462"
name "SUNTRONIC PTY LTD"
ned 0
ntype 2
]
node [
id 58
label "2-12128104"
name "BANYAN PROPERTIES INC."
ned 0
ntype 2
]
node [
id 59
label "1-14022758"
ned 0
ntype 1
name "8/4 BILLYARD AVENUE; ELIZABETH BAY 2011; AUSTRALIA"
]
node [
id 60
label "1-14048421"
name "LEVEL 11; 151 MACQUARIE STREET; SYDNEY"
ned 0
ntype 1
]
node [
id 61
label "1-14048420"
ned 0
ntype 1
name "Level 11; 1511 Macquarie Street; Sydney NSW 2000; Australia"
]
node [
id 62
label "1-14048422"
ned 0
ntype 1
name "Level 11; 151 Macquarie Street; Sydney; NSW; 2000; Australia"
]
node [
id 63
label "2-12198327"
name "MALACHITE ENTERPRISES LIMITED"
ned 0
ntype 2
]
node [
id 64
label "2-12198326"
name "VICTORIAN SECURITIES NO 2 PTY LTD."
ned 0
ntype 2
]
node [
id 65
label "2-12095211"
name "TREVOR JONES"
ned 0
ntype 2
]
node [
id 66
label "1-14001856"
ned 0
ntype 1
name "11A BURTON STREET MOSMAN 2070"
]
node [
id 67
label "1-14008805"
ned 0
ntype 1
name "21 BRETT STREET KINGS LANGLEY NSW 2147"
]
node [
id 68
label "4-10131080"
ned 0
ntype 4
name "BRAZILIAN IRON LIMITED"
]
node [
id 69
label "1-14064238"
ned 0
ntype 1
name "PO Box N284 Grosvenor Place; Sydney NSW 1220; Australia"
]
node [
id 70
label "2-12113688"
name "GABRIELLE MARY JARVIS"
ned 0
ntype 2
]
node [
id 71
label "2-12103291"
name "DAVID ANTHONY BURROUGHS"
ned 0
ntype 2
]
node [
id 72
label "1-14006789"
ned 0
ntype 1
name ""19 COLLINS AVENUE, ROSE BAY NSW 2028""
]
node [
id 73
label "1-14082636"
name "UNIT 3A; 63-65 KIRRIBILLI AVENUE; KIRRIBILLI; NSW 2061; AUSTRALIA"
ned 0
ntype 1
]
node [
id 74
label "1-14079412"
ned 0
ntype 1
name "SUITE 2; 1233 HIGH STREET; ARMELALE VIC 3143 AUSTRALIA"
]
node [
id 75
label "4-10109120"
name "PACK-TECH INTERNATIONAL LICENSING PTY LIMITED"
ned 0
ntype 4
]
edge [
source 0
target 44
weight 1
]
edge [
source 1
target 37
weight 1
]
edge [
source 1
target 5
weight 2
]
edge [
source 2
target 5
weight 1
]
edge [
source 2
target 74
weight 1
]
edge [
source 3
target 49
weight 1
]
edge [
source 4
target 71
weight 1
]
edge [
source 5
target 32
weight 2
]
edge [
source 5
target 6
weight 2
]
edge [
source 5
target 24
weight 2
]
edge [
source 5
target 12
weight 2
]
edge [
source 5
target 25
weight 2
]
edge [
source 5
target 14
weight 1
]
edge [
source 5
target 22
weight 2
]
edge [
source 5
target 23
weight 2
]
edge [
source 5
target 9
weight 2
]
edge [
source 5
target 13
weight 1
]
edge [
source 5
target 26
weight 2
]
edge [
source 5
target 27
weight 1
]
edge [
source 5
target 28
weight 1
]
edge [
source 5
target 29
weight 1
]
edge [
source 5
target 30
weight 1
]
edge [
source 5
target 31
weight 2
]
edge [
source 5
target 45
weight 1
]
edge [
source 5
target 33
weight 1
]
edge [
source 5
target 40
weight 1
]
edge [
source 5
target 58
weight 1
]
edge [
source 5
target 43
weight 1
]
edge [
source 5
target 44
weight 2
]
edge [
source 5
target 57
weight 1
]
edge [
source 5
target 48
weight 2
]
edge [
source 5
target 49
weight 2
]
edge [
source 5
target 50
weight 1
]
edge [
source 5
target 51
weight 2
]
edge [
source 5
target 53
weight 1
]
edge [
source 5
target 63
weight 1
]
edge [
source 5
target 64
weight 1
]
edge [
source 5
target 65
weight 1
]
edge [
source 5
target 70
weight 2
]
edge [
source 5
target 71
weight 1
]
edge [
source 6
target 72
weight 1
]
edge [
source 7
target 34
weight 1
]
edge [
source 25
target 60
weight 1
]
edge [
source 8
target 43
weight 1
]
edge [
source 24
target 60
weight 1
]
edge [
source 10
target 14
weight 1
]
edge [
source 12
target 39
weight 1
]
edge [
source 13
target 20
weight 1
]
edge [
source 15
target 17
weight 1
]
edge [
source 15
target 35
weight 1
]
edge [
source 15
target 59
weight 1
]
edge [
source 15
target 34
weight 1
]
edge [
source 15
target 30
weight 1
]
edge [
source 16
target 28
weight 1
]
edge [
source 18
target 51
weight 1
]
edge [
source 19
target 58
weight 1
]
edge [
source 20
target 22
weight 1
]
edge [
source 21
target 9
weight 1
]
edge [
source 23
target 60
weight 1
]
edge [
source 11
target 40
weight 1
]
edge [
source 26
target 62
weight 1
]
edge [
source 27
target 60
weight 1
]
edge [
source 29
target 60
weight 1
]
edge [
source 30
target 46
weight 1
]
edge [
source 30
target 34
weight 1
]
edge [
source 31
target 60
weight 1
]
edge [
source 32
target 60
weight 1
]
edge [
source 33
target 61
weight 1
]
edge [
source 34
target 75
weight 1
]
edge [
source 35
target 56
weight 1
]
edge [
source 36
target 41
weight 1
]
edge [
source 38
target 63
weight 1
]
edge [
source 38
target 64
weight 1
]
edge [
source 41
target 73
weight 1
]
edge [
source 41
target 56
weight 1
]
edge [
source 41
target 68
weight 1
]
edge [
source 42
target 50
weight 1
]
edge [
source 45
target 67
weight 1
]
edge [
source 47
target 56
weight 1
]
edge [
source 48
target 54
weight 1
]
edge [
source 52
target 56
weight 1
]
edge [
source 53
target 69
weight 1
]
edge [
source 55
target 70
weight 1
]
edge [
source 56
target 73
weight 1
]
edge [
source 56
target 75
weight 1
]
edge [
source 57
target 60
weight 1
]
edge [
source 65
target 66
weight 1
]
]
However, when I try to read the GML, networkx throws the below exception, complaining that 但是，当我尝试阅读GML时，networkx抛出以下异常，抱怨说
UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 0: ordinal not in range(128)
May I know how can I 我可以知道如何
- read this GML properly? 正确阅读此GML？ Is it possible to know which line of the GML causing this error? 是否可能知道导致该错误的GML的哪一行？
- write the GML without causing the above error? 写GML而不会导致上述错误？
With networkx version 2.0b1, running on Windows 7 使用networkx版本2.0b1，在Windows 7上运行
I got the following error: 我收到以下错误：
---------------------------------------------------------------------------
UnicodeDecodeError Traceback (most recent call last)
<ipython-input-9-12160890b63f> in <module>()
----> 1 G = nx.read_gml('test.gml')
<decorator-gen-501> in read_gml(path, label, destringizer)
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\utils\decorators.pyc in _open_file(func, *args, **kwargs)
219 # Finally, we call the original function, making sure to close the fobj.
220 try:
--> 221 result = func(*new_args, **kwargs)
222 finally:
223 if close_fobj:
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\readwrite\gml.pyc in read_gml(path, label, destringizer)
216 yield line
217
--> 218 G = parse_gml_lines(filter_lines(path), label, destringizer)
219 return G
220
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\readwrite\gml.pyc in parse_gml_lines(lines, label, destringizer)
396
397 tokens = tokenize()
--> 398 graph = parse_graph()
399
400 directed = graph.pop('directed', False)
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\readwrite\gml.pyc in parse_graph()
385
386 def parse_graph():
--> 387 curr_token, dct = parse_kv(next(tokens))
388 if curr_token[0] is not None: # EOF
389 unexpected(curr_token, 'EOF')
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\readwrite\gml.pyc in parse_kv(curr_token)
370 curr_token = next(tokens)
371 elif category == 4: # dict start
--> 372 curr_token, value = parse_dict(curr_token)
373 else:
374 unexpected(curr_token, "an int, float, string or '['")
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\readwrite\gml.pyc in parse_dict(curr_token)
380 def parse_dict(curr_token):
381 curr_token = consume(curr_token, 4, "'['") # dict start
--> 382 curr_token, dct = parse_kv(curr_token)
383 curr_token = consume(curr_token, 5, "']'") # dict end
384 return curr_token, dct
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\readwrite\gml.pyc in parse_kv(curr_token)
370 curr_token = next(tokens)
371 elif category == 4: # dict start
--> 372 curr_token, value = parse_dict(curr_token)
373 else:
374 unexpected(curr_token, "an int, float, string or '['")
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\readwrite\gml.pyc in parse_dict(curr_token)
380 def parse_dict(curr_token):
381 curr_token = consume(curr_token, 4, "'['") # dict start
--> 382 curr_token, dct = parse_kv(curr_token)
383 curr_token = consume(curr_token, 5, "']'") # dict end
384 return curr_token, dct
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\readwrite\gml.pyc in parse_kv(curr_token)
362 curr_token = next(tokens)
363 elif category == 3: # strings
--> 364 value = unescape(curr_token[1][1:-1])
365 if destringizer:
366 try:
c:\python2_7_13\lib\site-packages\networkx-2.0b1-py2.7.egg\networkx\readwrite\gml.pyc in unescape(text)
119 return text # leave unchanged
120
--> 121 return re.sub("&(?:[0-9A-Za-z]+|#(?:[0-9]+|x[0-9A-Fa-f]+));", fixup, text)
122
123
c:\python2_7_13\lib\re.pyc in sub(pattern, repl, string, count, flags)
153 a callable, it's passed the match object and must return
154 a replacement string to be used."""
--> 155 return _compile(pattern, flags).sub(repl, string, count)
156
157 def subn(pattern, repl, string, count=0, flags=0):
UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 0: ordinal not in range(128)
1 个解决方案
解决方案1
0 2017-08-27 01:12:54
I tested this with the current networkx-2.0b1 beta version and it worked correctly. 我使用当前的networkx-2.0b1 beta版进行了测试，并且可以正常工作。
In [1]: import networkx as nx
In [2]: G = nx.read_gml('test.gml')
In [3]: nx.write_gml(G,'test2.gml')
In [4]: H = nx.read_gml('test2.gml')
In [5]: nx.is_isomorphic(G,H)
# True
If you are not using that version perhaps you could update and test? 如果您不使用该版本，也许可以进行更新和测试？
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