Partition: Difference between revisions

From Cbcb
Jump to navigation Jump to search
No edit summary
Line 1: Line 1:
== 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:
<pre>/fs/szasmg/metagenomics/Partition/Partition.py [latest stable]
<pre>/fs/szasmg/metagenomics/Partition/Partition.py [stable]
/fs/szasmg/metagenomics/Partition/MetaPart/src/Partition.py [latest but possibly unstable builds]</pre>
/fs/szasmg/metagenomics/Partition/MetaPart/src/Partition.py [latest but possibly unstable builds]</pre>
== Options ==
== Options ==
<pre>
<pre>

Revision as of 14:08, 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 [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.