Clover coverage report -

Coverage timestamp: Mon May 5 2008 11:56:20 GMT-05:00

FRAMES NO FRAMES

file stats:	LOC:	144		Methods:	1
	NCLOC:	100		Classes:	1

Source file

Conditionals

Statements

Methods

TOTAL

MigrateOldData2.java

1		package org.proteomecommons.tranche.util;
2
3		import java.io.File;
4		import java.util.ArrayList;
5		import org.proteomecommons.tranche.flatfile.DataBlockUtil;
6		import org.proteomecommons.tranche.flatfile.DataDirectoryConfiguration;
7
8		/**
9		* To fix a messup on 213 where I accidentally removed 00, 01, and part of 02
10		* @author Jayson Falkner - jfalkner@umich.edu
11		*/
12		public class MigrateOldData2 {
13
14	0	public static void main(String[] args) throws Exception {
15		// check args
16	0	if (args.length < 3) {
17	0	System.out.println("Usage: <-old old data dir> <-new new data dir> ");
18	0	return;
19		}
20
21	0	ArrayList<String> oldDataDirectories = new ArrayList();
22	0	ArrayList<String> newDataDirectories = new ArrayList();
23		// parse the args
24	0	for (int i=0;i<args.length-1;i+=2) {
25		// check for new
26	0	if (args[i].trim().equals("-new")) {
27	0	newDataDirectories.add(args[i+1]);
28		// reality check
29	0	if (!(new File(args[i+1]).exists())) {
30	0	System.out.println(args[i+1]+" is not a directory! Exiting.");
31	0	return;
32		}
33		}
34		// check for old
35	0	if (args[i].trim().equals("-old")) {
36	0	oldDataDirectories.add(args[i+1]);
37		// reality check
38	0	if (!(new File(args[i+1]).exists())) {
39	0	System.out.println(args[i+1]+" is not a directory! Exiting.");
40	0	return;
41		}
42		}
43		}
44
45		// show the args
46	0	System.out.println("* Old Directories *");
47	0	for (String f : oldDataDirectories) {
48	0	System.out.println(" "+f);
49		}
50	0	System.out.println("* New Directories *");
51	0	for (String f : newDataDirectories) {
52	0	System.out.println(" "+f);
53		}
54
55		// make a data block util for the new format
56	0	DataBlockUtil dbu = new DataBlockUtil();
57
58		// use a set of directories for the new
59	0	System.out.println("* Data Directory Configurations *");
60	0	for (String s : newDataDirectories) {
61	0	DataDirectoryConfiguration ddc = new DataDirectoryConfiguration(s, Long.MAX_VALUE);
62	0	dbu.add(ddc);
63	0	System.out.println(" "+s);
64		}
65
66		// // temporarily exit so that the above is tested
67		// if (true) System.exit(1);
68
69		// iterate over the old directories. migrate the data over one directory at a time.
70	0	for (String oldDirString : oldDataDirectories) {
71		// make the directory
72	0	File oldDataDirectory = new File(oldDirString);
73	0	System.out.println("Migrating Directory: "+oldDataDirectory);
74
75	0	File[] firstLevel = oldDataDirectory.listFiles();
76	0	for (int i=0;i<firstLevel.length;i++) {
77	0	File[] secondLevel = firstLevel[i].listFiles();
78	0	for (int j=0;j<secondLevel.length;j++) {
79		// handle all of the actual files
80	0	File[] dirs = secondLevel[j].listFiles();
81	0	for (int k=0;k<dirs.length;k++) {
82		// make the big hash
83	0	BigHash hash = BigHash.createHashFromString(dirs[k].getName());
84		{
85		// handle all of the data/meta-data pairs
86	0	File data = new File(dirs[k], "data");
87	0	if (data.exists()) {
88		// get the bytes
89	0	byte[] bytes = IOUtil.getBytes(data);
90		// add to the dbu
91	0	dbu.addData(hash, bytes);
92
93		// purge the file
94	0	boolean deleted = data.delete();
95	0	if (!deleted) System.out.println("Can't delete "+data);
96		}
97		}
98		{
99		// handle all of the data/meta-data pairs
100	0	File metaData = new File(dirs[k], "metaData");
101	0	if (metaData.exists()) {
102		// get the bytes
103	0	byte[] bytes = IOUtil.getBytes(metaData);
104		// add to the dbu
105	0	dbu.addMetaData(hash, bytes);
106
107		// purge the file
108	0	boolean deleted = metaData.delete();
109	0	if (!deleted) System.out.println("Can't delete "+metaData);
110		}
111		}
112		// purge if empty
113	0	String[] checkEmpty = dirs[k].list();
114	0	if (checkEmpty == null \|\| checkEmpty.length == 0) {
115	0	boolean deleted = dirs[k].delete();
116	0	if (!deleted) System.out.println("Can't delete "+dirs[k]);
117		} else {
118	0	System.out.println("Directory not empty!? "+dirs[k]);
119		}
120		}
121		// purge second dir if empty
122	0	String[] checkEmpty = secondLevel[j].list();
123	0	if (checkEmpty == null \|\| checkEmpty.length == 0) {
124	0	boolean deleted = secondLevel[j].delete();
125	0	if (!deleted) System.out.println("Can't delete "+secondLevel[j]);
126		} else {
127	0	System.out.println("Directory not empty!? "+secondLevel[j]);
128		}
129		}
130		// purge first dir if empty
131	0	String[] checkEmpty = firstLevel[i].list();
132	0	if (checkEmpty == null \|\| checkEmpty.length == 0) {
133	0	boolean deleted = firstLevel[i].delete();
134	0	if (!deleted) System.out.println("Can't delete "+firstLevel[i]);
135		} else {
136	0	System.out.println("Directory not empty!? "+firstLevel[i]);
137		}
138
139		// print out status
140	0	System.out.println("Finished "+i+" out of "+firstLevel.length);
141		}
142		}
143		}
144		}