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License: MIT License
Simple wrapper of tabula-java: extract table from PDF into pandas DataFrame
License: MIT License
With tables has different column size in same page, tabula-py crashes with pd.read_csv
.
Reported in this issue tabulapdf/tabula-java#114 (comment)
It depends on tabulapdf/tabula-java#52
I am trying to run a simple test to scrape a table from a pdf using
df = read_pdf_table("./test.pdf", guess=False)
But, i get
CalledProcessError: Command '['java', '-jar', '/home/duduvz14/anaconda3/lib/python3.6/site-packages/tabula/tabula-0.9.2-jar-with-dependencies.jar', '--pages', '11', './test.pdf']' returned non-zero exit status 1.
I am using Ubuntu linux 64-bit and already attempted using Java 6, 7 and 8 but the error persists
Thanks in advance for the support
I can import the library tabula, but the functions are still inaccessible. I checked the directory \site-packages\tabula. The wrapper.py and tabula jar file are missing.
Write and check your environment.
python --version
: Python 3.6.1 :: Anaconda 4.4.0 (64-bit)java -version
: java version "1.8.0_131"I tried to manually place them in the directory and run again. But it still doesn't work.
df = tb.read_pdf("D:\\pdf table extract\\clarkfilterdcccrossref.pdf")
AttributeError Traceback (most recent call last)
<ipython-input-2-df8599025f3b> in <module>()
1 #df = pd.DataFrame()
----> 2 df = tb.read_pdf("D:\\pdf table extract\\clarkfilterdcccrossref.pdf")
3 tb.convert_into("D:\\pdf table extract\\clarkfilterdcccrossref.pdf","output.csv",output_format="csv")
AttributeError: module 'tabula' has no attribute 'read_pdf'
Read the pdf file.
Hi,
We get the following error parsing a certain pdf file from a URL.
This is using latest tabula-py from git.
url is https://resource.holdan.co.uk/Holdan/gbp/BMD.pdf
Traceback (most recent call last):
File "test.py", line 8, in <module>
df = tabula.read_pdf(url, pages="all")
File "/usr/local/lib/python2.7/dist-packages/tabula/wrapper.py", line 69, in read_pdf_table
return pd.read_csv(io.BytesIO(output), encoding = encoding)
File "/usr/local/lib/python2.7/dist-packages/pandas/io/parsers.py", line 646, in parser_f
return _read(filepath_or_buffer, kwds)
File "/usr/local/lib/python2.7/dist-packages/pandas/io/parsers.py", line 401, in _read
data = parser.read()
File "/usr/local/lib/python2.7/dist-packages/pandas/io/parsers.py", line 939, in read
ret = self._engine.read(nrows)
File "/usr/local/lib/python2.7/dist-packages/pandas/io/parsers.py", line 1508, in read
data = self._reader.read(nrows)
File "pandas/parser.pyx", line 848, in pandas.parser.TextReader.read (pandas/parser.c:9977)
File "pandas/parser.pyx", line 870, in pandas.parser.TextReader._read_low_memory (pandas/parser.c:10235)
File "pandas/parser.pyx", line 924, in pandas.parser.TextReader._read_rows (pandas/parser.c:10963)
File "pandas/parser.pyx", line 911, in pandas.parser.TextReader._tokenize_rows (pandas/parser.c:10834)
File "pandas/parser.pyx", line 2024, in pandas.parser.raise_parser_error (pandas/parser.c:25978)
pandas.io.common.CParserError: Error tokenizing data. C error: Expected 7 fields in line 270, saw 10
The following error appears Error 'tokenizing data. C error: Expected 4 fields in line 44, saw 5'
Write and check your environment.
python --version
: 2.7java -version
: 8I cannot post a url to the PDF because it is a bank statement, and thus contains confidential information
I am using the read_pdf function to extract tables from PDFs. Try and Except was used to catch the errors for the pdf that tabula cannot read
df = read_pdf(files[i], pages='all', encoding='ISO-8859-1', error_bad_lines=False)
C:/Users/riley/Desktop/BankStatements/50139.pdf Error tokenizing data. C error: Expected 4 fields in line 44, saw 5
convert_into()
converts only the first page.
python --version
: Python 2.7.6java -version
: java version "1.8.0_144"tabula.convert_into("test.pdf", "output.csv", output_format="csv")
CSV with table from the first page only.
CSV with tables from all the pages.
Hi there,
I was curious if I'm missing something with regards to convert_into
. I pulled down the repo and did a convert into with the example.pdf you provide for my own sanity check, and its only converting the first page of the PDF to a CSV. Is this normal behavior? Am I missing something important here?
Also, with the options
does format
actually work? I've been trying to use this for an outputted parse object to no avail.
Write and check your environment.
python --version
: 2.7java -version
: 8csv
I upgraded tabula.py to use the latest jar (tabula-1.0.1-jar-with-dependencies.jar) and while it reduced these warnings, I still get some.
Aug 31, 2017 11:42:02 AM org.apache.pdfbox.pdmodel.font.PDTrueTypeFont
WARNING: Using fallback font 'LiberationSans' for 'TimesNewRomanPS-ItalicMT'
Aug 31, 2017 11:42:03 AM org.apache.pdfbox.pdmodel.font.PDTrueTypeFont
WARNING: Using fallback font 'LiberationSans' for 'TimesNewRomanPS-ItalicMT'
Aug 31, 2017 11:42:03 AM org.apache.pdfbox.pdmodel.font.PDTrueTypeFont
WARNING: Using fallback font 'LiberationSans' for 'TimesNewRomanPS-ItalicMT'
The main issue is that common cell headers donot get read in and not sure if the warnings are related. Please find the PDF file here: ufile.io/5xuti
You will see that common cell header in table of page 1 for instance ('Three Months Ended March 31') gets dropped.
I'm getting an error while reading a pdf file via tabula
Write and check your environment.
python --version
:3 ?java -version
: 8?//write here
below is the code used
import tabula
df = tabula.read_pdf("D:/Users/rag/Documents/GE_Confidential/Projects/GE_Health_Care/pdf/test.pdf")
---------------------------------------------------------------------------
FileNotFoundError Traceback (most recent call last)
<ipython-input-11-1c72e9de1c11> in <module>()
----> 1 df = tabula.read_pdf("D:/Users/rag/Documents/GE_Confidential/Projects/GE_Health_Care/pdf/test.pdf")
D:\Users\rag\AppData\Local\Continuum\Anaconda3\lib\site-packages\tabula\wrapper.py in read_pdf(input_path, output_format, encoding, java_options, pandas_options, multiple_tables, **kwargs)
73
74 try:
---> 75 output = subprocess.check_output(args)
76 finally:
77 if is_url:
D:\Users\rag\AppData\Local\Continuum\Anaconda3\lib\subprocess.py in check_output(timeout, *popenargs, **kwargs)
334
335 return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
--> 336 **kwargs).stdout
337
338
D:\Users\rag\AppData\Local\Continuum\Anaconda3\lib\subprocess.py in run(input, timeout, check, *popenargs, **kwargs)
401 kwargs['stdin'] = PIPE
402
--> 403 with Popen(*popenargs, **kwargs) as process:
404 try:
405 stdout, stderr = process.communicate(input, timeout=timeout)
D:\Users\rag\AppData\Local\Continuum\Anaconda3\lib\subprocess.py in __init__(self, args, bufsize, executable, stdin, stdout, stderr, preexec_fn, close_fds, shell, cwd, env, universal_newlines, startupinfo, creationflags, restore_signals, start_new_session, pass_fds, encoding, errors)
705 c2pread, c2pwrite,
706 errread, errwrite,
--> 707 restore_signals, start_new_session)
708 except:
709 # Cleanup if the child failed starting.
D:\Users\rag\AppData\Local\Continuum\Anaconda3\lib\subprocess.py in _execute_child(self, args, executable, preexec_fn, close_fds, pass_fds, cwd, env, startupinfo, creationflags, shell, p2cread, p2cwrite, c2pread, c2pwrite, errread, errwrite, unused_restore_signals, unused_start_new_session)
988 env,
989 cwd,
--> 990 startupinfo)
991 finally:
992 # Child is launched. Close the parent's copy of those pipe
FileNotFoundError: [WinError 2] The system cannot find the file specified
i want to read a pdf table and convert it to data-frame for further analysis...
if there is any other alternative please let me know how to do it..
Many thanks in advance...
Hi
I've got a problem when try read one of the pdf. Can you take a look - where am i wrong?
python --version
: 2.7
Your PDF URL: https://drive.google.com/file/d/0B0MZAdjMKP0Sbjcyc3Y3RDVMNlk/view?usp=sharing
OS and it's version: ? windows
from tabula import convert_into
convert_into("data\test1.pdf", "data\test1.csv", output_format="csv")
May 18, 2017 2:56:53 PM org.apache.pdfbox.pdmodel.font.PDCIDFontType2Font getawtFont
INFO: Can't read the embedded font Arial-BoldMT
May 18, 2017 2:56:53 PM org.apache.pdfbox.pdmodel.font.PDCIDFontType2Font getawtFont
INFO: Using font Arial Bold instead
May 18, 2017 2:56:53 PM org.apache.pdfbox.pdmodel.font.PDCIDFontType2Font getawtFont
INFO: Can't read the embedded font ArialMT
May 18, 2017 2:56:53 PM org.apache.pdfbox.pdmodel.font.PDCIDFontType2Font getawtFont
INFO: Using font Arial instead
Hi, I tried to run this code on Mac OSX with Anaconda and Java 8:
import tabula
df = tabula.read_pdf("https://github.com/tabulapdf/tabula-java/raw/master/src/test/resources/technology/tabula/arabic.pdf") print(df)
I got this error message:
Exception in thread "main" java.lang.NoSuchMethodError: java.lang.Integer.compare(II)I at technology.tabula.TextChunk.isLtrDominant(TextChunk.java:179) at technology.tabula.TextElement.mergeWords(TextElement.java:266) at technology.tabula.TextElement.mergeWords(TextElement.java:105) at technology.tabula.detectors.NurminenDetectionAlgorithm.detect(NurminenDetectionAlgorithm.java:178) at technology.tabula.CommandLineApp.extractTables(CommandLineApp.java:161) at technology.tabula.CommandLineApp.main(CommandLineApp.java:60) Traceback (most recent call last): File "test.py", line 3, in <module> df = tabula.read_pdf("https://github.com/tabulapdf/tabula-java/raw/master/src/test/resources/technology/tabula/arabic.pdf") File "/Users/username/anaconda/lib/python3.5/site-packages/tabula/wrapper.py", line 54, in read_pdf_table output = subprocess.check_output(args) File "/Users/username/anaconda/lib/python3.5/subprocess.py", line 626, in check_output **kwargs).stdout File "/Users/username/anaconda/lib/python3.5/subprocess.py", line 708, in run output=stdout, stderr=stderr) subprocess.CalledProcessError: Command '['java', '-jar', '/Users/username/anaconda/lib/python3.5/site-packages/tabula/tabula-0.9.1-jar-with-dependencies.jar', '--pages', '1', '--guess', '4931.pdf']' returned non-zero exit status 1
Any idea what might cause this? thanks!
To set Java options such as -Xmx
, read_pdf()
should have an option for it.
ref: #27
While using area and column attributes, guess has to be set to False.
Otherwise, setting area and column will not work
I have developed a script using tabula-py and created an executable using pyinstaller which works fine on my PC but when I run it on my client's PC it gives me the error
'The system cannot find the file specified tabula/wrapper.py although the the file is already present in the executable folder in the correct path. Should the client needs to have java installed to run the script?
python --version
: 3.5java -version
: 8I have created an executable file using pyinstaller.
//write here
paste your core code
paste your output
I want to run my executable file on a windows PC without java and python installed. I guess I need to install java on PC to run my executable.
Cannot read pdf's from directory. Was working before.
Python 2.7
print read_pdf(r"C:\Users\riley\Desktop\Bank Statements\53591.pdf")
Traceback (most recent call last):
File "C:/Users/riley/PycharmProjects/Payroll/PayrollParsePDF.py", line 126, in <module>
print read_pdf(r"C:\Users\riley\Desktop\Bank Statements\53591.pdf")
File "C:\Python27\lib\site-packages\tabula\wrapper.py", line 54, in read_pdf_table
output = subprocess.check_output(args)
File "C:\Python27\lib\subprocess.py", line 212, in check_output
process = Popen(stdout=PIPE, *popenargs, **kwargs)
File "C:\Python27\lib\subprocess.py", line 390, in __init__
errread, errwrite)
File "C:\Python27\lib\subprocess.py", line 640, in _execute_child
startupinfo)
WindowsError: [Error 2] The system cannot find the file specified
Why use both -g
and -a
flags in options for extracting specific area? Isn't -g
overriding the -a
flag? You mention that it does not work without the -r
option. I just tried without -r
and -g
and it works good.
java -jar ./tabula/tabula-0.9.1-jar-with-dependencies.jar -g -r -a "337.29,226.49,472.85,384.91" table.pdf
I'm trying to extract a portion of a pdf page using tabula-py api. But the end character of the last cell is missed when I run the code in python. I tried parsing it using the jar file provided on the tabula-java page, and it extracted all the cells character correctly
Write and check your environment.
python --version
: Python 2.7.12java -version
: openjdk version "1.8.0_121"I tried parsing the page in tabula-java GUI. When it used the lattice extraction method, the character was misisng. But when I clicked the stream method of extraction the page was parsed correctly.
df = tabula.read_pdf("Skyteam_Timetable_NA_EU.pdf",pages="15",area= (55.781,306.797,75.119,580.497),spreadsheet=True)
list(df.head().keys())
[u'FROM:', u'Detroit, USA', u'DT']
[u'FROM:', u'Detroit, USA', u'DTW']
Hello all, is there any option of converting selected pages of PDF into excel / csv? i mean to say if i want to convert only tables present on page 12 to 20 of the PDF then what option do i have? regards
I am extracting data from a table using the "guess=True" option. Unfortunately, the first row is imported as column header. (The guess is not really wrong, since the typeface is bold and there is a line below it, see Example.) I didn't find I way to tell read_pdf_table not to treat the particular first line as column header.
Would it be possible to add a "header=None" option?
I am working with a PDF very similar to this document:
As you can see the above document has a header, when I try to use tabula-py to extract it, I am getting everything merged in a single column:
In:
df = read_pdf_table('file.pdf')
Out:
Thus, my question is how can I ignore the header and get the content of the table?. I also tried with the options:
In:
df = read_pdf_table('file.pdf', columns = ['Col1', 'Col2', 'Col3', 'Col4', 'Col5'])
Out:
---------------------------------------------------------------------------
CalledProcessError Traceback (most recent call last)
<ipython-input-4-33ed930c5d2a> in <module>()
6
7 df = read_pdf_table('file.pdf',
----> 8 columns = ['Col1', 'Col2', 'Col3', 'Col4', 'Col5']
9
10 #df = read_pdf_table('/Users/user/Downloads/table.pdf')
/usr/local/lib/python3.5/site-packages/tabula/wrapper.py in read_pdf_table(input_path, **kwargs)
45 args = ["java", "-jar", jar_path] + options + [input_path]
46
---> 47 output = subprocess.check_output(args)
48
49 if len(output) == 0:
/usr/local/Cellar/python3/3.5.2_2/Frameworks/Python.framework/Versions/3.5/lib/python3.5/subprocess.py in check_output(timeout, *popenargs, **kwargs)
624
625 return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
--> 626 **kwargs).stdout
627
628
/usr/local/Cellar/python3/3.5.2_2/Frameworks/Python.framework/Versions/3.5/lib/python3.5/subprocess.py in run(input, timeout, check, *popenargs, **kwargs)
706 if check and retcode:
707 raise CalledProcessError(retcode, process.args,
--> 708 output=stdout, stderr=stderr)
709 return CompletedProcess(process.args, retcode, stdout, stderr)
710
CalledProcessError: Command '['java', '-jar', '/usr/local/lib/python3.5/site-packages/tabula/tabula-0.9.1-jar-with-dependencies.jar', '--pages', '1', '--guess', '--columns',
Nevertheless, it did not worked.
read_pdf reads only one page, can not set pages="all"
if i set pages="all" it throws error
Write and check your environment.
python --version
: 3.6java -version
: 1.8.0_144i tried to print all table data, with pages=all
it throws error
from tabula import read_pdf
dfs=read_pdf('test.pdf', encoding='cp1254', output_format='csv', pages='all')
print(dfs)
Oct 03, 2017 7:17:20 AM org.apache.pdfbox.pdmodel.font.PDCIDFontType2
INFO: OpenType Layout tables used in font Times New Roman are not implemented in PDFBox and will be ignored
Oct 03, 2017 7:17:21 AM org.apache.pdfbox.pdmodel.font.PDCIDFontType2
INFO: OpenType Layout tables used in font Times New Roman are not implemented in PDFBox and will be ignored
Oct 03, 2017 7:17:22 AM org.apache.pdfbox.pdmodel.font.PDCIDFontType2
INFO: OpenType Layout tables used in font Times New Roman are not implemented in PDFBox and will be ignored
Oct 03, 2017 7:17:24 AM org.apache.pdfbox.pdmodel.font.PDCIDFontType2
INFO: OpenType Layout tables used in font Times New Roman are not implemented in PDFBox and will be ignored
Oct 03, 2017 7:17:24 AM org.apache.pdfbox.pdmodel.font.PDCIDFontType2
INFO: OpenType Layout tables used in font Times New Roman are not implemented in PDFBox and will be ignored
Traceback (most recent call last):
File "D:/pycharm/cdsco/tabula_csv.py", line 2, in
dfs=read_pdf('test.pdf', encoding='cp1254', output_format='csv', pages='all')
File "C:\Users\amal\AppData\Local\Programs\Python\Python36-32\lib\site-packages\tabula\wrapper.py", line 97, in read_pdf
return pd.read_csv(io.BytesIO(output), **pandas_options)
File "C:\Users\amal\AppData\Local\Programs\Python\Python36-32\lib\site-packages\pandas\io\parsers.py", line 655, in parser_f
return _read(filepath_or_buffer, kwds)
File "C:\Users\amal\AppData\Local\Programs\Python\Python36-32\lib\site-packages\pandas\io\parsers.py", line 411, in _read
data = parser.read(nrows)
File "C:\Users\amal\AppData\Local\Programs\Python\Python36-32\lib\site-packages\pandas\io\parsers.py", line 1005, in read
ret = self._engine.read(nrows)
File "C:\Users\amal\AppData\Local\Programs\Python\Python36-32\lib\site-packages\pandas\io\parsers.py", line 1748, in read
data = self._reader.read(nrows)
File "pandas_libs\parsers.pyx", line 890, in pandas._libs.parsers.TextReader.read (pandas_libs\parsers.c:10862)
File "pandas_libs\parsers.pyx", line 912, in pandas._libs.parsers.TextReader._read_low_memory (pandas_libs\parsers.c:11138)
File "pandas_libs\parsers.pyx", line 966, in pandas._libs.parsers.TextReader._read_rows (pandas_libs\parsers.c:11884)
File "pandas_libs\parsers.pyx", line 953, in pandas._libs.parsers.TextReader._tokenize_rows (pandas_libs\parsers.c:11755)
File "pandas_libs\parsers.pyx", line 2184, in pandas._libs.parsers.raise_parser_error (pandas_libs\parsers.c:28765)
pandas.errors.ParserError: Error tokenizing data. C error: Expected 4 fields in line 49, saw 5
Process finished with exit code 1
if I remove pages='all'
it just prints first page table
i want to read all pages data
It looks like the current version of tabula-py is not compatible with the latest tabula-java. What needs to be done to upgrade tabula-py which has the updates from https://github.com/tabulapdf/tabula/releases/tag/v1.1.1 ?
Write and check your environment.
python --version
: 3.6java -version
: 1.8.0_45-b14fails to parse tables fully throwing these warnings:
Jul 19, 2017 11:05:36 AM org.apache.fontbox.util.FontManager findTTFontname
WARNING: Font not found: Times New Roman,Bold
It appears that tabula-java v1.1.1 has the fix for this issue.
read_pdf_table(in_file, pages=i)
Jul 19, 2017 11:05:35 AM org.apache.pdfbox.util.PDFStreamEngine processOperator
INFO: unsupported/disabled operation: BDC
Jul 19, 2017 11:05:36 AM org.apache.pdfbox.util.PDFStreamEngine processOperator
INFO: unsupported/disabled operation: EMC
Jul 19, 2017 11:05:36 AM org.apache.pdfbox.util.PDFStreamEngine processOperator
INFO: unsupported/disabled operation: BDC
Jul 19, 2017 11:05:36 AM org.apache.pdfbox.pdmodel.font.PDTrueTypeFont getawtFont
INFO: Can't find the specified font Times New Roman,Bold
Jul 19, 2017 11:05:36 AM org.apache.fontbox.util.FontManager findTTFontname
WARNING: Font not found: Times New Roman,Bold
Jul 19, 2017 11:05:36 AM org.apache.pdfbox.pdmodel.font.PDTrueTypeFont getawtFont
INFO: Can't find the specified font Times New Roman,Italic
Jul 19, 2017 11:05:36 AM org.apache.fontbox.util.FontManager findTTFontname
WARNING: Font not found: Times New Roman,Italic
Jul 19, 2017 11:05:36 AM org.apache.pdfbox.util.PDFStreamEngine processOperator
INFO: unsupported/disabled operation: EMC
Jul 19, 2017 11:05:36 AM org.apache.pdfbox.pdmodel.font.PDTrueTypeFont getawtFont
INFO: Can't find the specified font Times New Roman
Jul 19, 2017 11:05:36 AM org.apache.fontbox.util.FontManager findTTFontname
WARNING: Font not found: Times New Roman
Jul 19, 2017 11:05:37 AM org.apache.pdfbox.util.PDFStreamEngine processOperator
INFO: unsupported/disabled operation: BDC
Jul 19, 2017 11:05:37 AM org.apache.pdfbox.util.PDFStreamEngine processOperator
INFO: unsupported/disabled operation: EMC
After tabula-java 0.9.2, spreadsheet/no-spreadsheet options are renamed to lattice/stream.
Dear tabula Developers,
I just installed tabula on Windows 10 x64, Anaconda Python 3.6 with the following command:
>c:\Programs\Anaconda\Scripts\pip.exe install tabula-py
After that I restarted my python kernel and imported tabula
:
import tabula
df = tabula.read_pdf('my_pdf')
But I get the following error message:
AttributeError: module 'tabula' has no attribute 'read_pdf'
I checked the module folder in Anaconda (c:/Programs/Anaconda/Lib/site-packages/tabula/
) and I found the 2 jar
files and the 2 py
files, and the wrapper.py
contains the read_pdf
function.
Can you help me why I'm not able to load this function? I tried to check the installed version but
AttributeError: module 'tabula' has no attribute 'version'
By the way pip
returned with a success message after install:
Installing collected packages: tabula-py
Successfully installed tabula-py-0.8.0
I use several external modules in Anaconda and never get any issue like this...
Thank you!
Please add to the documentation of tabluapy that tabula requires java 6 or java 7 only!
I spent many hours trying to diagnose why I could not get tabula-py to run. I had java but it was not the correct version.
From the tabula readme
Using Tabula
First, make sure you have a recent copy of Java installed. You can
download Java at https://www.java.com/download/ . Tabula requires
a Java Runtime Environment compatible with Java 6 or Java 7.
To hack around other java versions installed I prepend the correct path to java 7 I installed
import sys
b = sys.path
sys.path = ['/opt/java/jre1.7.0_79/bin'] + b
And can now extract the tables. This would have saved a lot of time if requirements said
java 6 or java 7
Write and check your environment.
python --version
: 3.6java -version
: 8I tried to google it. I did not find anything similar
paste your core code
from tabula import read_pdf
df = read_pdf('Fuvest/1.pdf')
Exception in thread "main" java.lang.UnsupportedClassVersionError: technology/tabula/CommandLineApp : Unsupported major.minor version 51.0
at java.lang.ClassLoader.defineClass1(Native Method)
at java.lang.ClassLoader.defineClassCond(ClassLoader.java:637)
at java.lang.ClassLoader.defineClass(ClassLoader.java:621)
at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
at java.lang.ClassLoader.loadClass(ClassLoader.java:306)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
at java.lang.ClassLoader.loadClass(ClassLoader.java:247)
Traceback (most recent call last):
File "/Users/brunoandradeono/Documents/LiClipse Workspace/Process_imaging/Uni4aDay.py", line 36, in
df = read_pdf('/users/Brunoandradeono/desktop/Fuvest/1.pdf')
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/tabula/wrapper.py", line 75, in read_pdf
output = subprocess.check_output(args)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/subprocess.py", line 336, in check_output
**kwargs).stdout
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/subprocess.py", line 418, in run
output=stdout, stderr=stderr)
subprocess.CalledProcessError: Command '['java', '-jar', '/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/tabula/tabula-1.0.1-jar-with-dependencies.jar', '--pages', '1', '--guess', '/users/Brunoandradeono/desktop/Fuvest/1.pdf']' returned non-zero exit status 1.
Get all columns without the header and pass to data frame
My java version is 1.8.0_101 and pandas installed in anaconda environment. I tried install it on both python version is Python 2.7.12 and python 3.5 :: Anaconda 4.1.1 (64-bit).
I executed "pip install tabula-py" on anaconda as well, the running message is :
Collecting tabula-py
Could not find a version that satisfies the requirement tabula-py (from versions: )
No matching distribution found for tabula-py
Is there any specific requirements other than Java and pandas? Thank you
Can 'convert_into()' pdf file to json, but executing 'read_pdf()' as json gives UTF-8 encoding error.
Write and check your environment.
python --version
: ? 3.6.1.final.0, jupyer notebook 5.0.0java -version
: ?I don't understand why the convert_into function works fine with this pdf, but passing the same pdf into read_pdf() yields an encoding error. Shouldn't the default options for both functions be identical?
from tabula import read_pdf
from tabula import convert_into
import pandas
file = 'T:/baysestuaries/Data/WDFT-Coastal/db_archive/QA/QA-17H104161-2017-09-22-DO.pdf'
convert_into(file,"test.json", output_format='json')
df = read_pdf(file, output_format='json')
---------------------------------------------------------------------------
UnicodeDecodeError Traceback (most recent call last)
<ipython-input-208-fc7babef8e03> in <module>()
----> 1 df = read_pdf(file, output_format='json')
C:\Users\ETurner\AppData\Local\Continuum\Anaconda3\lib\site-packages\tabula\wrapper.py in read_pdf(input_path, output_format, encoding, java_options, pandas_options, multiple_tables, **kwargs)
90
91 else:
---> 92 return json.loads(output.decode(encoding))
93
94 else:
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xb0 in position 5134: invalid start byte
Ideally, the behavior of both functions should be identical. I am actually trying to read this pdf as a pandas dataframe, but it is very messy. Just reading it as a json works for me so I can parse out the items I need. However, don't want to have to convert files first to waste disk space.
Hi, when I tried the example notebook note, anaconda IDE (spyder) gave me some error message
from tabula import read_pdf
Traceback (most recent call last):
File "<ipython-input-25-59770b1fd371>", line 1, in <module>
from tabula import read_pdf
ImportError: cannot import name 'read_pdf'
However, the following command works
import tabula
anaconda (python 3.5) + windows10
Write and check your environment.
python --version
: ?java -version
: ?//write here
paste your core code
paste your output
Error tokenizing data. C error: Expected 10 fields in line 18, saw 11
Jupyter Notebook- Anaconda
Write and check your environment.
python --version
: >3java -version
: Version 8 update 111: 1.8.0_111I used read_pdf on above url and I received this error:
"Error tokenizing data. C error: Expected 10 fields in line 18, saw 11"
//write here
paste your core code
paste your output
In the tabula-java command line utility there is a --columns option where the x-coordinates of the columns can be given. This is really useful for poorly formatted tables. Would it be possible to add it here?
I'm getting a pandas
parse error using the file:
presumably because one row has more cells than the the ones preceding it.
----> 1 df = tabula.read_pdf("data/2017/btcc-round1.pdf", pages=62, stream=True,lattice=False)
/usr/local/lib/python3.6/site-packages/tabula/wrapper.py in read_pdf(input_path, output_format, encoding, java_options, pandas_options, multiple_tables, **kwargs)
95 pandas_options['encoding'] = pandas_options.get('encoding', encoding)
96
---> 97 return pd.read_csv(io.BytesIO(output), **pandas_options)
98
99
...
pandas/_libs/parsers.pyx in pandas._libs.parsers.TextReader.read (pandas/_libs/parsers.c:10862)()
pandas/_libs/parsers.pyx in pandas._libs.parsers.TextReader._read_low_memory (pandas/_libs/parsers.c:11138)()
pandas/_libs/parsers.pyx in pandas._libs.parsers.TextReader._read_rows (pandas/_libs/parsers.c:11884)()
pandas/_libs/parsers.pyx in pandas._libs.parsers.TextReader._tokenize_rows (pandas/_libs/parsers.c:11755)()
pandas/_libs/parsers.pyx in pandas._libs.parsers.raise_parser_error (pandas/_libs/parsers.c:28765)()
ParserError: Error tokenizing data. C error: Expected 6 fields in line 8, saw 7
As a stop gap, should the the pandas
dataframe be sized to the maximum number of items in a row (the max length of the row lists in the JSON representation), padding short rows with nulls, and then let the user fudge the result? Alternatively, set the columns from the column width and try to populate any long row(s) correctly?
The yellow highlight area is also giving some issues - e.g. with the extraction only extracting the highlighted areas under some circumstances - but I assume that's a tabula-java
issue?
I have a PDF with a table extending to multiple pages. For some rows, the value in last two (or second last two) columns is getting merged into a single one. Please note that I have removed some of the sensitive information.
python --version
: Python 2.7.6java -version
: java version "1.8.0_144"Tried lattice=True
option but it is not even reading the table
all_values = tabula.read_pdf("sample.pdf", pages='all', pandas_options={'header': None, 'error_bad_lines': False, 'warn_bad_lines': False})
all_values = all_values.values.tolist()
for val in all_values:
print val
[u'22/06/17', u'IMPS-7-RAHUL-HDFC-XXXXXXXX', u'00007', u'22/06/17', nan, u'1,000.00 14,904.08', nan]
[nan, u'8-', nan, nan, nan, nan, nan]
[u'23/06/17', u'NEFT CHGS INCL ST & CESS 170617', u'000000000000000', u'23/06/17', u'2.88', u'14,901.20', nan]
[u'23/06/17', u'NEFT CR-YESB0000001-ANI TECHNOLOGIES PRI', u'N1', u'23/06/17', nan, u'579.00 15,480.20', nan]
[nan, u'VATE LIMITED-RAHUL YADAV-N1', nan, nan, nan, nan, nan]
[nan, u'9', nan, nan, nan, nan, nan]
[u'23/06/17', u'ACH D- AUFINANCIERS-9', u'0000002', u'23/06/17', u'14,400.00', u'1,080.20', nan]
[u'24/06/17', u'IMPS-7-ANI TECHNOLOGIES PRI-H', u'00007', u'24/06/17', nan, u'2,378.00 3,458.20', nan]
[nan, u'DFC-XXXXXXXXXXX-2017-06', nan, nan, nan, nan, nan]
[nan, u'-24-PAYMENT', nan, nan, nan, nan, nan]
[u'27/06/17', u'NEFT CR-YESB0000001-ANI TECHNOLOGIES PRI', u'N1', u'27/06/17', nan, u'445.00 3,903.20', nan]
[nan, u'VATE LIMITED-RAHUL YADAV-N1', nan, nan, nan, nan, nan]
[nan, u'8', nan, nan, nan, nan, nan]
[u'28/06/17', u'NEFT CR-YESB0000001-ANI TECHNOLOGIES PRI', u'N1', u'28/06/17', nan, u'2,279.00 6,182.20', nan]
[nan, u'VATE LIMITED-RAHUL YADAV-N1', nan, nan, nan, nan, nan]
[nan, u'0', nan, nan, nan, nan, nan]
[u'29/06/17', u'NEFT CR-YESB0000001-ANI TECHNOLOGIES PRI', u'N1', u'29/06/17', nan, u'1,165.00 7,347.20', nan]
[nan, u'VATE LIMITED-RAHUL YADAV-N1', nan, nan, nan, nan, nan]
[nan, u'5', nan, nan, nan, nan, nan]
[u'22/06/17', u'IMPS-7-RAHUL-HDFC-XXXXXXXX', u'00007', u'22/06/17', nan, u'1,000.00', u'14,904.08']
[nan, u'8-', nan, nan, nan, nan, nan]
[u'23/06/17', u'NEFT CHGS INCL ST & CESS 170617', u'000000000000000', u'23/06/17', u'2.88', nan, u'14,901.20']
[u'23/06/17', u'NEFT CR-YESB0000001-ANI TECHNOLOGIES PRI', u'N1', u'23/06/17', nan, u'579.00', u'15,480.20']
[nan, u'VATE LIMITED-RAHUL YADAV-N1', nan, nan, nan, nan, nan]
[nan, u'9', nan, nan, nan, nan, nan]
[u'23/06/17', u'ACH D- AUFINANCIERS-9', u'0000002', u'23/06/17', u'14,400.00', nan, u'1,080.20']
[u'24/06/17', u'IMPS-7-ANI TECHNOLOGIES PRI-H', u'00007', u'24/06/17', nan, u'2,378.00', u'3,458.20']
[nan, u'DFC-XXXXXXXXXXX-2017-06', nan, nan, nan, nan, nan]
[nan, u'-24-PAYMENT', nan, nan, nan, nan, nan]
[u'27/06/17', u'NEFT CR-YESB0000001-ANI TECHNOLOGIES PRI', u'N1', u'27/06/17', nan, u'445.00', u'3,903.20']
[nan, u'VATE LIMITED-RAHUL YADAV-N1', nan, nan, nan, nan, nan]
[nan, u'8', nan, nan, nan, nan, nan]
[u'28/06/17', u'NEFT CR-YESB0000001-ANI TECHNOLOGIES PRI', u'N1', u'28/06/17', nan, u'2,279.00', u'6,182.20']
[nan, u'VATE LIMITED-RAHUL YADAV-N1', nan, nan, nan, nan, nan]
[nan, u'0', nan, nan, nan, nan, nan]
[u'29/06/17', u'NEFT CR-YESB0000001-ANI TECHNOLOGIES PRI', u'N1', u'29/06/17', nan, u'1,165.00', u'7,347.20']
[nan, u'VATE LIMITED-RAHUL YADAV-N1', nan, nan, nan, nan, nan]
[nan, u'5', nan, nan, nan, nan, nan]
Write and check your environment.
python --version
: ?java -version
: ?//write here
paste your core code
paste your output
I am trying to extract the tables from a number of pdf documents:
In:
from tabula import read_pdf_table
pdf_table = read_pdf_table("../file.pdf", pages="all")
Out:
---------------------------------------------------------------------------
CParserError Traceback (most recent call last)
<ipython-input-31-c86da9ee0350> in <module>()
1 from tabula import read_pdf_table
----> 2 pdf_table = read_pdf_table("../file.pdf", pages="all")
3 type(pdf_table)
/usr/local/lib/python3.5/site-packages/tabula/wrapper.py in read_pdf_table(input_path, options, pages, guess, area, spreadsheet, password, nospreadsheet, silent)
100 return
101
--> 102 return pd.read_csv(io.BytesIO(output))
/usr/local/lib/python3.5/site-packages/pandas/io/parsers.py in parser_f(filepath_or_buffer, sep, delimiter, header, names, index_col, usecols, squeeze, prefix, mangle_dupe_cols, dtype, engine, converters, true_values, false_values, skipinitialspace, skiprows, nrows, na_values, keep_default_na, na_filter, verbose, skip_blank_lines, parse_dates, infer_datetime_format, keep_date_col, date_parser, dayfirst, iterator, chunksize, compression, thousands, decimal, lineterminator, quotechar, quoting, escapechar, comment, encoding, dialect, tupleize_cols, error_bad_lines, warn_bad_lines, skipfooter, skip_footer, doublequote, delim_whitespace, as_recarray, compact_ints, use_unsigned, low_memory, buffer_lines, memory_map, float_precision)
643 skip_blank_lines=skip_blank_lines)
644
--> 645 return _read(filepath_or_buffer, kwds)
646
647 parser_f.__name__ = name
/usr/local/lib/python3.5/site-packages/pandas/io/parsers.py in _read(filepath_or_buffer, kwds)
398 return parser
399
--> 400 data = parser.read()
401 parser.close()
402 return data
/usr/local/lib/python3.5/site-packages/pandas/io/parsers.py in read(self, nrows)
936 raise ValueError('skipfooter not supported for iteration')
937
--> 938 ret = self._engine.read(nrows)
939
940 if self.options.get('as_recarray'):
/usr/local/lib/python3.5/site-packages/pandas/io/parsers.py in read(self, nrows)
1503 def read(self, nrows=None):
1504 try:
-> 1505 data = self._reader.read(nrows)
1506 except StopIteration:
1507 if self._first_chunk:
pandas/parser.pyx in pandas.parser.TextReader.read (pandas/parser.c:9884)()
pandas/parser.pyx in pandas.parser.TextReader._read_low_memory (pandas/parser.c:10142)()
pandas/parser.pyx in pandas.parser.TextReader._read_rows (pandas/parser.c:10870)()
pandas/parser.pyx in pandas.parser.TextReader._tokenize_rows (pandas/parser.c:10741)()
pandas/parser.pyx in pandas.parser.raise_parser_error (pandas/parser.c:25878)()
CParserError: Error tokenizing data. C error: Expected 2 fields in line 733, saw 3
I tried to use sep
parameter as \t
. Nevertheless, it did not worked. What can I do?
i need urgent help on tabula automation. i read your article at the below link but and installed pip as well as tabula-py image below -
https://github.com/chezou/tabula-py
But how to proceed after that, when i try to execute below lines through a python script its giving an error, kindly help-
#!/usr/bin/python
#!/usr/bin/perl
#!/usr/bin/perl -d:ptkdb
import fileinput, sys, os ,subprocess, io
from tabula import read_pdf_table
df=read_pdf_table("TAJ.pdf")
tabula-py has done a mostly fantastic job doing what I need it to do so far. However, I have encountered issues caused by a table column that consists entirely of NULLs. For example, I have a table split across 5 different pages. For one page, the partitioned table in question has an empty column; this shifts the entire dataframe to the left, so that when it is merged with the partitioned tables from the other pages, the columns don't line up correctly. Is there a way around this?
File "/Users/nestordeharo/Documents/Python/scripts_automatizar/venv/lib/python2.7/site-packages/tabula/wrapper.py", line 74, in read_pdf_table
result = subprocess.run(args, stdout=subprocess.PIPE)
AttributeError: 'module' object has no attribute 'run'
hi,
area has no effect when page > 1
Write and check your environment.
python --version
: 3.4java -version
: 8OK
df = tabula.read_pdf(self.filename,
pages=1,
area=[470.58, 29.388, 745.116, 580.692],
columns=[30.876, 56.916, 267.468, 361.212, 454.956, 481.74],
encoding="latin-1",
pandas_options={"encoding": "latin-1"})
KO :no effect
df = tabula.read_pdf(self.filename,
pages=2,
area=[470.58, 29.388, 745.116, 580.692],
columns=[30.876, 56.916, 267.468, 361.212, 454.956, 481.74],
encoding="latin-1",
pandas_options={"encoding": "latin-1"})
tested with 3 pdf files
thanks a lot
I have the same table continuing on multiple pages and on each page the header is written again.
This makes sense in a pdf format, but not in a csv.
Is there a way so that it ignores the headers and only converts the table?
For example, convert_without_header=True
X410-SATA-S28 text value in a pdf is getting converted as X410?SATA?S28 into csv. this issue applicable for python and java versions on tabula.
windows/linux
Write and check your environment.
python --version
: ? 2.7java -version
: ? 1.7I will replace ? with a hyphen in code temporarily
//write here
paste your core code
java -Xmx4080m -jar C:\Python27\lib\site-packages\tabula\tabula-0.9.2-jar-with-dependencies.jar --pages all --guess --format CSV --outfile C:\Meher\pricelistoutput.csv --spreadsheet C:\Meher\pricelist.pdf
paste your output
X410?SATA?S28
## What did you intend to be?
X410-SATA-S28
My input PDF file is too large ..around 9000 pages (working fine if i select few pages)
Trying both in windows and linux
Write and check your environment.
python --version
: 2.7.13java -version
: ? 1.7 (tried only python)//write here
paste your core code
tabula.convert_into("C:\Meher\pricelist.pdf", "C:\Meher\pricelistoutput.csv", spreadsheet=True,output_format="csv", pages="all")
tabula.convert_into("C:\Meher\pricelist.pdf", "C:\Meher\pricelistoutput.csv"
, spreadsheet=True,output_format="csv", pages="all")
May 16, 2017 6:12:14 PM org.apache.pdfbox.util.PDFStreamEngine processOperator
INFO: unsupported/disabled operation: i
Exception in thread "main" java.lang.OutOfMemoryError: GC overhead limit exceede
d
at technology.tabula.ObjectExtractor.processTextPosition(ObjectExtractor
.java:329)
at org.apache.pdfbox.util.PDFStreamEngine.processEncodedText(PDFStreamEn
gine.java:504)
at org.apache.pdfbox.util.operator.ShowText.process(ShowText.java:56)
at org.apache.pdfbox.util.PDFStreamEngine.processOperator(PDFStreamEngin
e.java:562)
at org.apache.pdfbox.util.PDFStreamEngine.processSubStream(PDFStreamEngi
ne.java:269)
at org.apache.pdfbox.util.PDFStreamEngine.processSubStream(PDFStreamEngi
ne.java:236)
at org.apache.pdfbox.util.PDFStreamEngine.processStream(PDFStreamEngine.
java:216)
at technology.tabula.ObjectExtractor.drawPage(ObjectExtractor.java:153)
at technology.tabula.ObjectExtractor.extractPage(ObjectExtractor.java:10
at technology.tabula.PageIterator.next(PageIterator.java:29)
at technology.tabula.CommandLineApp.extractFile(CommandLineApp.java:160)
at technology.tabula.CommandLineApp.extractFileInto(CommandLineApp.java:
at technology.tabula.CommandLineApp.main(CommandLineApp.java:74)
Traceback (most recent call last):
File "", line 1, in
File "C:\Python27\lib\site-packages\tabula\wrapper.py", line 114, in convert_i
nto
subprocess.check_output(args)
File "C:\Python27\lib\subprocess.py", line 219, in check_output
raise CalledProcessError(retcode, cmd, output=output)
subprocess.CalledProcessError: Command '['java', '-jar', 'C:\Python27\lib\sit
e-packages\tabula\tabula-0.9.2-jar-with-dependencies.jar', '--pages', 'all', '
--guess', '--format', 'CSV', '--outfile', 'C:\Meher\pricelistoutput.csv', '--s
preadsheet', 'C:\Meher\pricelist.pdf']' returned non-zero exit status 1
Some tables' numbers are extracted wrong from pdf
python --version
: 3.6.2java -version
: 1.8.0_144tabula-py version
: 1.0.0df = read_pdf('problem.pdf')
Also reproduce on:
tabula-java v1.01 with commad:
java -jar tabula-1.0.1-jar-with-dependencies.jar problem.pdf -o problem.csv
tabula v1.1.1
Hello! I tried using tabula package to import some data in pdf but I got an error. I tried the command - from tabula import read_pdf. This gave me an error - cannot import name 'read_pdf'
I installed tabula-py package.
from tabula import read_pdf
ImportError Traceback (most recent call last)
<ipython-input-30-59770b1fd371> in <module>()
----> 1 from tabula import read_pdf
ImportError: cannot import name 'read_pdf'
In my case converting a pdf file with multiple page failed. I tried both, converting it into dataframe and converting to csv, but both failed. It has worked when converting without giving any page argument. However, in that case only the first page is getting converted.
Write and check your environment.
python --version
: Python 3.6.1 :: Anaconda 4.4.0 (64-bit)java -version
: 1.8.0_131from tabula import read_pdf, convert_into
convert_into("opm_16.pdf", "test.csv", output_format="csv", page=1)
CalledProcessError Traceback (most recent call last)
<ipython-input-29-bde26bfa1bde> in <module>()
----> 1 convert_into("opm_16.pdf", "test.csv", output_format="csv", page=1)
C:\Users\{user}\Anaconda3\lib\site-packages\tabula\wrapper.py in convert_into(input_path, output_path, output_format, java_options, **kwargs)
138
139 try:
--> 140 subprocess.check_output(args)
141 finally:
142 if is_url:
C:\Users\{user}\Anaconda3\lib\subprocess.py in check_output(timeout, *popenargs, **kwargs)
334
335 return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
--> 336 **kwargs).stdout
337
338
C:\Users\{user}\Anaconda3\lib\subprocess.py in run(input, timeout, check, *popenargs, **kwargs)
416 if check and retcode:
417 raise CalledProcessError(retcode, process.args,
--> 418 output=stdout, stderr=stderr)
419 return CompletedProcess(process.args, retcode, stdout, stderr)
420
CalledProcessError: Command '['java', '-jar', 'C:\\Users\\{user}\\Anaconda3\\lib\\site-packages\\tabula\\tabula-0.9.2-jar-with-dependencies.jar', '--pages', '1', '--guess', '--format', 'CSV', '--outfile', 'test.csv', 'opm_16.pdf']' returned non-zero exit status 1.
When importing the read_pdf method from tabula-py using
from tabula import read_pdf
as the example demonstrated
It shows the following error message
AttributeError: 'module' object has no attribute 'read_pdf'
anaconda python 2.1.12 + tabula 0.9.0
Write and check your environment.
python --version
: ? anaconda python 2.1.12java -version
: ? java 1.8.0_111//write here
paste your core code
paste your output
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