Extract data from XML file


 
Thread Tools Search this Thread
Top Forums Shell Programming and Scripting Extract data from XML file
# 1  
Old 02-28-2013
Extract data from XML file

Hi ,
I have input file as XML. following are input data
#complex.xml
Code:
<?xml version="1.0" encoding="UTF-8"?>
<TEST_doc xmlns="http://www.w3.org/2001/XMLSchema-instance">
  <ENTRY uid="123456">
    <protein>
      <name>PROT001</name>
      <organism>Human</organism>
      <class>cytoplasmic</class>
    </protein>
    <xrefs>
      <xref>
          <database>Ensembl</database>
          <accn>ENSG00000105829</accn>
      </xref>
      <xref>
          <database>UNIPROT</database>
          <accn>Q12345</accn>
      </xref>
    </xrefs>
  </ENTRY>
  <ENTRY uid="45678">
    <protein>
      <name>PROT002</name>
      <organism>Human</organism>
      <class>nuclear</class>
    </protein>
    <xrefs>
      <xref>
          <database>Ensembl</database>
          <accn>ENSG00000105333</accn>
      </xref>
      <xref>
          <database>UNIPROT</database>
          <accn>Q14789</accn>
      </xref>
    </xrefs>
  </ENTRY>
</TEST_doc>

i want to extract data from this file and i tried below query.
cat complex.xml | xml sel -t -m //xref -v "concat(../../protein/name,' ',../../protein/class,' ',./database,' ',./accn)" -n

but it is not giving any output...but this query is working when instead of xmlns i am writing xmlns:xsi="...."
but my input file is having only xmlns="..."

please help me ...

Last edited by fpmurphy; 02-28-2013 at 09:53 AM..
# 2  
Old 02-28-2013
Please use code tags. Please post the output you are expecting from your sample input.
Login or Register to Ask a Question

Previous Thread | Next Thread

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

Extract Data from XML file.

Hi Guys, I am in a need to extract data from a xml file. The XML file format is as below. <data jsxnamespace="propsbundle" locales=""> <locale> <!--Error messages starts--> <record jsxid="CHARPAIR001" jsxtext=" must be selected"></record> <record... (1 Reply)
Discussion started by: Showdown
1 Replies

2. Shell Programming and Scripting

How to extract data from XML file using shell scripting?

Hi , I have input file as XML. following are input data #complex.xml Code: <?xml version="1.0" encoding="UTF-8"?><TEST_doc xmlns="http://www.w3.org/2001/XMLSchema-instance"> <ENTRY uid="123456"> <protein> <name>PROT001</name> <organism>Human</organism> ... (1 Reply)
Discussion started by: arun_kohan
1 Replies

3. Shell Programming and Scripting

How to extract data from xml file using shell scripting?

Hi evry1, This is my 1st post in this forum.Pls help me I want to extract some data froma xml file which has 2000 lines using shell scripting. Actually my xml file has some "audio and video codes" which i need to arrange in a column wise format after extracting it using shell scripting.I... (4 Replies)
Discussion started by: arun_kohan
4 Replies

4. Shell Programming and Scripting

Extract data from XML file and write in CSV file

Hi friend i have input as following XML file <?xml version="1.0"?> <Document xmlns="urn:iso:std:iso:20022:tech:xsd:camt.054.001.02"> <BkToCstmrDbtCdtNtfctn> <GrpHdr><MsgId>LBP-RDJ-TE000000-130042430010001001</MsgId><CreDtTm>2013-01-04T03:21:30</CreDtTm></GrpHdr>... (3 Replies)
Discussion started by: mohan sharma
3 Replies

5. Shell Programming and Scripting

Data Extract from XML Log File

Please help me out to extract the Data from the XML Log files. So here is the data ERROR|2010-08-26 00:05:52,958|SERIAL_ID=128279996|ST=2010-08-2600:05:52|DEVICE=113.2.21.12:601|TYPE=TransactionLog... (9 Replies)
Discussion started by: raghunsi
9 Replies

6. Shell Programming and Scripting

Extract data from an XML file & write into a CSV file

Hi All, I am having an XML tag like: <detail sim_ser_no_1="898407109001000090" imsi_1="452070001000090"> <security>ADM1=????</security> <security>PIN1=????</security> <security>PIN2=????</security> ... (2 Replies)
Discussion started by: ss_ss
2 Replies

7. Shell Programming and Scripting

XML data extract

Hi all, I have the following xml document : <HEADER><El1>asdf</El1> <El2>3</El2> <El3>asad</El3> <El4>asasdf</El4> <El5>asdf</El5> <El6>asdf</El6> <El7>asdf</El7> <El8>A</El8> <El9>0</El9> <El10>75291028141917</El10> <El11>asdf</El11> <El12>sdf</El12> <El13>er</El13> <El14><El15>asdf... (1 Reply)
Discussion started by: nthed
1 Replies

8. Shell Programming and Scripting

sed or awk to extract data from Xml file

Hi, I want to get data from Xml file by using sed or awk command. I want to get the following result : mon titre 1;Createur1;Dossier1 mon titre 1;Createur1;Dossier1 and save it in cvs file (fichier.cvs). FROM this Xml file (test.xml): <playlist version="1"> <trackList> <track>... (1 Reply)
Discussion started by: yeclota
1 Replies

9. Shell Programming and Scripting

Help with shell script to extract data from XML file

Hello Scripting Gurus, I need help with extracting data from the XML file using shell script. The data is in a large XML and I need to extract the id values of all completedworkflows. Here is a sample of it. Input and output data is also in the attached text files. <wfregistry>... (5 Replies)
Discussion started by: yajaykumar
5 Replies

10. Shell Programming and Scripting

extract specific data from xml format file.

Hi, I need to extract the start time value (bold, red font) under the '<LogEvent ID="Timer Start">' tag (black bold) from a file with the following pattern. There are other LogEventIDs listed in the file as well, making it harder for me to extract out the specific start time that I need. . .... (7 Replies)
Discussion started by: 60doses
7 Replies
Login or Register to Ask a Question