Difference between revisions of "Partition"

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== Summary ==
 
== Summary ==
 
Partition is a python script that takes an input of regular expressions and metadata to build an xml file of matching header information from a fasta-formatted file.  Partition.py is located at:
 
Partition is a python script that takes an input of regular expressions and metadata to build an xml file of matching header information from a fasta-formatted file.  Partition.py is located at:
*/fs/szasmg/metagenomics/Partition/Partition.py [latest stable]
+
<pre>/fs/szasmg/metagenomics/Partition/Partition.py [latest stable]
*/fs/szasmg/metagenomics/Partition/MetaPart/src/Partition.py [latest but possibly unstable builds]
+
/fs/szasmg/metagenomics/Partition/MetaPart/src/Partition.py [latest but possibly unstable builds]</pre>
 
== Options ==
 
== Options ==
 
<pre>
 
<pre>

Revision as of 14:07, 13 August 2009

Summary

Partition is a python script that takes an input of regular expressions and metadata to build an xml file of matching header information from a fasta-formatted file. Partition.py is located at:

/fs/szasmg/metagenomics/Partition/Partition.py [latest stable]
/fs/szasmg/metagenomics/Partition/MetaPart/src/Partition.py [latest but possibly unstable builds]

Options

-p    Populate the given partition/XML.
-b    Given the input file, build a partition.
-m    Metadata file that will be used to populate the partitions.
-h    Header information for the metadata, if not present column information for metadata will be found in first line of the metadata.
-f    Input fasta file.
-s    Split the fasta file based on the partition information and output to the directory.
-o    Name of the output .part file.
-c    Convert an old partition format into the new xml format.