diff rankfilter_GCMS/pdftotabular.py @ 0:9d5f4f5f764b

Initial commit to toolshed

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/rankfilter_GCMS/pdftotabular.py	Thu Jan 16 13:10:00 2014 +0100
@@ -0,0 +1,41 @@
+"""
+Copyright (C) 2013, Pieter Lukasse, Plant Research International, Wageningen
+
+Licensed under the Apache License, Version 2.0 (the "License");
+you may not use this software except in compliance with the License.
+You may obtain a copy of the License at
+
+http://www.apache.org/licenses/LICENSE-2.0
+
+Unless required by applicable law or agreed to in writing, software
+distributed under the License is distributed on an "AS IS" BASIS,
+WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+See the License for the specific language governing permissions and
+limitations under the License.
+
+"""
+
+import sys
+import pdfread
+from subprocess import call
+
+
+def convert_pdftotext(filename, output_file):
+    '''
+    Converts PDF file to text
+    @param filename: PDF file to parse
+    @param output_file: output text file for the hits    
+    '''
+    
+    try:
+        call(["pdftotext", filename, output_file])
+    except:
+        raise Exception("Error while trying to convert PDF to text")
+   
+   
+
+
+if __name__ == '__main__':
+    pdf_as_text = sys.argv[1]+".txt"
+    convert_pdftotext(sys.argv[1], pdf_as_text)
+    pdfread.convert_pdftotext2tabular(pdf_as_text, sys.argv[2], sys.argv[3], False)