http://git-wip-us.apache.org/repos/asf/hbase-site/blob/de18d468/devapidocs/src-html/org/apache/hadoop/hbase/util/HBaseFsck.HBaseFsckTool.html
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diff --git 
a/devapidocs/src-html/org/apache/hadoop/hbase/util/HBaseFsck.HBaseFsckTool.html 
b/devapidocs/src-html/org/apache/hadoop/hbase/util/HBaseFsck.HBaseFsckTool.html
index e1bc325..63e7421 100644
--- 
a/devapidocs/src-html/org/apache/hadoop/hbase/util/HBaseFsck.HBaseFsckTool.html
+++ 
b/devapidocs/src-html/org/apache/hadoop/hbase/util/HBaseFsck.HBaseFsckTool.html
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java.util.concurrent.atomic.AtomicBoolean;<a name="line.59"></a>
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-<span class="sourceLineNo">157</span>/**<a name="line.157"></a>
-<span class="sourceLineNo">158</span> * HBaseFsck (hbck) is a tool for 
checking and repairing region consistency and<a name="line.158"></a>
-<span class="sourceLineNo">159</span> * table integrity problems in a 
corrupted HBase.<a name="line.159"></a>
-<span class="sourceLineNo">160</span> * &lt;p&gt;<a name="line.160"></a>
-<span class="sourceLineNo">161</span> * Region consistency checks verify that 
hbase:meta, region deployment on region<a name="line.161"></a>
-<span class="sourceLineNo">162</span> * servers and the state of data in HDFS 
(.regioninfo files) all are in<a name="line.162"></a>
-<span class="sourceLineNo">163</span> * accordance.<a name="line.163"></a>
-<span class="sourceLineNo">164</span> * &lt;p&gt;<a name="line.164"></a>
-<span class="sourceLineNo">165</span> * Table integrity checks verify that all 
possible row keys resolve to exactly<a name="line.165"></a>
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there are no individual degenerate<a name="line.166"></a>
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regions; and that there are no<a name="line.167"></a>
-<span class="sourceLineNo">168</span> * overlapping regions.<a 
name="line.168"></a>
-<span class="sourceLineNo">169</span> * &lt;p&gt;<a name="line.169"></a>
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two phases:<a name="line.170"></a>
-<span class="sourceLineNo">171</span> * &lt;ol&gt;<a name="line.171"></a>
-<span class="sourceLineNo">172</span> * &lt;li&gt; Repair Table Integrity on 
HDFS. (merge or fabricate regions)<a name="line.172"></a>
-<span class="sourceLineNo">173</span> * &lt;li&gt; Repair Region Consistency 
with hbase:meta and assignments<a name="line.173"></a>
-<span class="sourceLineNo">174</span> * &lt;/ol&gt;<a name="line.174"></a>
-<span class="sourceLineNo">175</span> * &lt;p&gt;<a name="line.175"></a>
-<span class="sourceLineNo">176</span> * For table integrity repairs, the 
tables' region directories are scanned<a name="line.176"></a>
-<span class="sourceLineNo">177</span> * for .regioninfo files.  Each table's 
integrity is then verified.  If there<a name="line.177"></a>
-<span class="sourceLineNo">178</span> * are any orphan regions (regions with 
no .regioninfo files) or holes, new<a name="line.178"></a>
-<span class="sourceLineNo">179</span> * regions are fabricated.  Backwards 
regions are sidelined as well as empty<a name="line.179"></a>
-<span class="sourceLineNo">180</span> * degenerate (endkey==startkey) regions. 
 If there are any overlapping regions,<a name="line.180"></a>
-<span class="sourceLineNo">181</span> * a new region is created and all data 
is merged into the new region.<a name="line.181"></a>
-<span class="sourceLineNo">182</span> * &lt;p&gt;<a name="line.182"></a>
-<span class="sourceLineNo">183</span> * Table integrity repairs deal solely 
with HDFS and could potentially be done<a name="line.183"></a>
-<span class="sourceLineNo">184</span> * offline -- the hbase region servers or 
master do not need to be running.<a name="line.184"></a>
-<span class="sourceLineNo">185</span> * This phase can eventually be used to 
completely reconstruct the hbase:meta table in<a name="line.185"></a>
-<span class="sourceLineNo">186</span> * an offline fashion.<a 
name="line.186"></a>
-<span class="sourceLineNo">187</span> * &lt;p&gt;<a name="line.187"></a>
-<span class="sourceLineNo">188</span> * Region consistency requires three 
conditions -- 1) valid .regioninfo file<a name="line.188"></a>
-<span class="sourceLineNo">189</span> * present in an HDFS region dir,  2) 
valid row with .regioninfo data in META,<a name="line.189"></a>
-<span class="sourceLineNo">190</span> * and 3) a region is deployed only at 
the regionserver that was assigned to<a name="line.190"></a>
-<span class="sourceLineNo">191</span> * with proper state in the master.<a 
name="line.191"></a>
-<span class="sourceLineNo">192</span> * &lt;p&gt;<a name="line.192"></a>
-<span class="sourceLineNo">193</span> * Region consistency repairs require 
hbase to be online so that hbck can<a name="line.193"></a>
-<span class="sourceLineNo">194</span> * contact the HBase master and region 
servers.  The hbck#connect() method must<a name="line.194"></a>
-<span class="sourceLineNo">195</span> * first be called successfully.  Much of 
the region consistency information<a name="line.195"></a>
-<span class="sourceLineNo">196</span> * is transient and less risky to 
repair.<a name="line.196"></a>
-<span class="sourceLineNo">197</span> * &lt;p&gt;<a name="line.197"></a>
-<span class="sourceLineNo">198</span> * If hbck is run from the command line, 
there are a handful of arguments that<a name="line.198"></a>
-<span class="sourceLineNo">199</span> * can be used to limit the kinds of 
repairs hbck will do.  See the code in<a name="line.199"></a>
-<span class="sourceLineNo">200</span> * {@link #printUsageAndExit()} for more 
details.<a name="line.200"></a>
-<span class="sourceLineNo">201</span> */<a name="line.201"></a>
-<span 
class="sourceLineNo">202</span>@InterfaceAudience.LimitedPrivate(HBaseInterfaceAudience.TOOLS)<a
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-<span class="sourceLineNo">203</span>@InterfaceStability.Evolving<a 
name="line.203"></a>
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implements Closeable {<a name="line.204"></a>
-<span class="sourceLineNo">205</span>  public static final long 
DEFAULT_TIME_LAG = 60000; // default value of 1 minute<a name="line.205"></a>
-<span class="sourceLineNo">206</span>  public static final long 
DEFAULT_SLEEP_BEFORE_RERUN = 10000;<a name="line.206"></a>
-<span class="sourceLineNo">207</span>  private static final int 
MAX_NUM_THREADS = 50; // #threads to contact regions<a name="line.207"></a>
-<span class="sourceLineNo">208</span>  private static boolean 
rsSupportsOffline = true;<a name="line.208"></a>
-<span class="sourceLineNo">209</span>  private static final int 
DEFAULT_OVERLAPS_TO_SIDELINE = 2;<a name="line.209"></a>
-<span class="sourceLineNo">210</span>  private static final int 
DEFAULT_MAX_MERGE = 5;<a name="line.210"></a>
-<span class="sourceLineNo">211</span>  private static final String 
TO_BE_LOADED = "to_be_loaded";<a name="line.211"></a>
-<span class="sourceLineNo">212</span>  private static final String 
HBCK_LOCK_FILE = "hbase-hbck.lock";<a name="line.212"></a>
-<span class="sourceLineNo">213</span>  private static final int 
DEFAULT_MAX_LOCK_FILE_ATTEMPTS = 5;<a name="line.213"></a>
-<span class="sourceLineNo">214</span>  private static final int 
DEFAULT_LOCK_FILE_ATTEMPT_SLEEP_INTERVAL = 200; // milliseconds<a 
name="line.214"></a>
-<span class="sourceLineNo">215</span>  private static final int 
DEFAULT_LOCK_FILE_ATTEMPT_MAX_SLEEP_TIME = 5000; // milliseconds<a 
name="line.215"></a>
-<span class="sourceLineNo">216</span>  // We have to set the timeout value 
&gt; HdfsConstants.LEASE_SOFTLIMIT_PERIOD.<a name="line.216"></a>
-<span class="sourceLineNo">217</span>  // In HADOOP-2.6 and later, the 
Namenode proxy now created with custom RetryPolicy for<a name="line.217"></a>
-<span class="sourceLineNo">218</span>  // AlreadyBeingCreatedException which 
is implies timeout on this operations up to<a name="line.218"></a>
-<span class="sourceLineNo">219</span>  // HdfsConstants.LEASE_SOFTLIMIT_PERIOD 
(60 seconds).<a name="line.219"></a>
-<span class="sourceLineNo">220</span>  private static final int 
DEFAULT_WAIT_FOR_LOCK_TIMEOUT = 80; // seconds<a name="line.220"></a>
-<span class="sourceLineNo">221</span>  private static final int 
DEFAULT_MAX_CREATE_ZNODE_ATTEMPTS = 5;<a name="line.221"></a>
-<span class="sourceLineNo">222</span>  private static final int 
DEFAULT_CREATE_ZNODE_ATTEMPT_SLEEP_INTERVAL = 200; // milliseconds<a 
name="line.222"></a>
-<span class="sourceLineNo">223</span>  private static final int 
DEFAULT_CREATE_ZNODE_ATTEMPT_MAX_SLEEP_TIME = 5000; // milliseconds<a 
name="line.223"></a>
-<span class="sourceLineNo">224</span><a name="line.224"></a>
-<span class="sourceLineNo">225</span>  /**********************<a 
name="line.225"></a>
-<span class="sourceLineNo">226</span>   * Internal resources<a 
name="line.226"></a>
-<span class="sourceLineNo">227</span>   **********************/<a 
name="line.227"></a>
-<span class="sourceLineNo">228</span>  private static final Logger LOG = 
LoggerFactory.getLogger(HBaseFsck.class.getName());<a name="line.228"></a>
-<span class="sourceLineNo">229</span>  private ClusterMetrics status;<a 
name="line.229"></a>
-<span class="sourceLineNo">230</span>  private ClusterConnection connection;<a 
name="line.230"></a>
-<span class="sourceLineNo">231</span>  private Admin admin;<a 
name="line.231"></a>
-<span class="sourceLineNo">232</span>  private Table meta;<a 
name="line.232"></a>
-<span class="sourceLineNo">233</span>  // threads to do ||izable tasks: 
retrieve data from regionservers, handle overlapping regions<a 
name="line.233"></a>
-<span class="sourceLineNo">234</span>  protected ExecutorService executor;<a 
name="line.234"></a>
-<span class="sourceLineNo">235</span>  private long startMillis = 
EnvironmentEdgeManager.currentTime();<a name="line.235"></a>
-<span class="sourceLineNo">236</span>  private HFileCorruptionChecker hfcc;<a 
name="line.236"></a>
-<span class="sourceLineNo">237</span>  private int retcode = 0;<a 
name="line.237"></a>
-<span class="sourceLineNo">238</span>  private Path HBCK_LOCK_PATH;<a 
name="line.238"></a>
-<span class="sourceLineNo">239</span>  private FSDataOutputStream hbckOutFd;<a 
name="line.239"></a>
-<span class="sourceLineNo">240</span>  // This lock is to prevent cleanup of 
balancer resources twice between<a name="line.240"></a>
-<span class="sourceLineNo">241</span>  // ShutdownHook and the main code. We 
cleanup only if the connect() is<a name="line.241"></a>
-<span class="sourceLineNo">242</span>  // successful<a name="line.242"></a>
-<span class="sourceLineNo">243</span>  private final AtomicBoolean 
hbckLockCleanup = new AtomicBoolean(false);<a name="line.243"></a>
-<span class="sourceLineNo">244</span><a name="line.244"></a>
-<span class="sourceLineNo">245</span>  // Unsupported options in HBase 2.0+<a 
name="line.245"></a>
-<span class="sourceLineNo">246</span>  private static final Set&lt;String&gt; 
unsupportedOptionsInV2 = Sets.newHashSet("-fix",<a name="line.246"></a>
-<span class="sourceLineNo">247</span>      "-fixAssignments", "-fixMeta", 
"-fixHdfsHoles", "-fixHdfsOrphans", "-fixTableOrphans",<a name="line.247"></a>
-<span class="sourceLineNo">248</span>      "-fixHdfsOverlaps", 
"-sidelineBigOverlaps", "-fixSplitParents", "-removeParents",<a 
name="line.248"></a>
-<span class="sourceLineNo">249</span>      "-fixEmptyMetaCells", "-repair", 
"-repairHoles", "-maxOverlapsToSideline", "-maxMerge");<a name="line.249"></a>
-<span class="sourceLineNo">250</span><a name="line.250"></a>
-<span class="sourceLineNo">251</span>  /***********<a name="line.251"></a>
-<span class="sourceLineNo">252</span>   * Options<a name="line.252"></a>
-<span class="sourceLineNo">253</span>   ***********/<a name="line.253"></a>
-<span class="sourceLineNo">254</span>  private static boolean details = false; 
// do we display the full report<a name="line.254"></a>
-<span class="sourceLineNo">255</span>  private long timelag = 
DEFAULT_TIME_LAG; // tables whose modtime is older<a name="line.255"></a>
-<span class="sourceLineNo">256</span>  private static boolean forceExclusive = 
false; // only this hbck can modify HBase<a name="line.256"></a>
-<span class="sourceLineNo">257</span>  private boolean fixAssignments = false; 
// fix assignment errors?<a name="line.257"></a>
-<span class="sourceLineNo">258</span>  private boolean fixMeta = false; // fix 
meta errors?<a name="line.258"></a>
-<span class="sourceLineNo">259</span>  private boolean checkHdfs = true; // 
load and check fs consistency?<a name="line.259"></a>
-<span class="sourceLineNo">260</span>  private boolean fixHdfsHoles = false; 
// fix fs holes?<a name="line.260"></a>
-<span class="sourceLineNo">261</span>  private boolean fixHdfsOverlaps = 
false; // fix fs overlaps (risky)<a name="line.261"></a>
-<span class="sourceLineNo">262</span>  private boolean fixHdfsOrphans = false; 
// fix fs holes (missing .regioninfo)<a name="line.262"></a>
-<span class="sourceLineNo">263</span>  private boolean fixTableOrphans = 
false; // fix fs holes (missing .tableinfo)<a name="line.263"></a>
-<span class="sourceLineNo">264</span>  private boolean fixVersionFile = false; 
// fix missing hbase.version file in hdfs<a name="line.264"></a>
-<span class="sourceLineNo">265</span>  private boolean fixSplitParents = 
false; // fix lingering split parents<a name="line.265"></a>
-<span class="sourceLineNo">266</span>  private boolean removeParents = false; 
// remove split parents<a name="line.266"></a>
-<span class="sourceLineNo">267</span>  private boolean fixReferenceFiles = 
false; // fix lingering reference store file<a name="line.267"></a>
-<span class="sourceLineNo">268</span>  private boolean fixHFileLinks = false; 
// fix lingering HFileLinks<a name="line.268"></a>
-<span class="sourceLineNo">269</span>  private boolean fixEmptyMetaCells = 
false; // fix (remove) empty REGIONINFO_QUALIFIER rows<a name="line.269"></a>
-<span class="sourceLineNo">270</span>  private boolean fixReplication = false; 
// fix undeleted replication queues for removed peer<a name="line.270"></a>
-<span class="sourceLineNo">271</span>  private boolean fixAny = false; // Set 
to true if any of the fix is required.<a name="line.271"></a>
-<span class="sourceLineNo">272</span><a name="line.272"></a>
-<span class="sourceLineNo">273</span>  // limit checking/fixes to listed 
tables, if empty attempt to check/fix all<a name="line.273"></a>
-<span class="sourceLineNo">274</span>  // hbase:meta are always checked<a 
name="line.274"></a>
-<span class="sourceLineNo">275</span>  private Set&lt;TableName&gt; 
tablesIncluded = new HashSet&lt;&gt;();<a name="line.275"></a>
-<span class="sourceLineNo">276</span>  private int maxMerge = 
DEFAULT_MAX_MERGE; // maximum number of overlapping regions to merge<a 
name="line.276"></a>
-<span class="sourceLineNo">277</span>  // maximum number of overlapping 
regions to sideline<a name="line.277"></a>
-<span class="sourceLineNo">278</span>  private int maxOverlapsToSideline = 
DEFAULT_OVERLAPS_TO_SIDELINE;<a name="line.278"></a>
-<span class="sourceLineNo">279</span>  private boolean sidelineBigOverlaps = 
false; // sideline overlaps with &gt;maxMerge regions<a name="line.279"></a>
-<span class="sourceLineNo">280</span>  private Path sidelineDir = null;<a 
name="line.280"></a>
+<span class="sourceLineNo">154</span>import 
org.apache.hbase.thirdparty.com.google.common.base.Joiner;<a 
name="line.154"></a>
+<span class="sourceLineNo">155</span>import 
org.apache.hbase.thirdparty.com.google.common.base.Preconditions;<a 
name="line.155"></a>
+<span class="sourceLineNo">156</span>import 
org.apache.hbase.thirdparty.com.google.common.collect.ImmutableList;<a 
name="line.156"></a>
+<span class="sourceLineNo">157</span>import 
org.apache.hbase.thirdparty.com.google.common.collect.Lists;<a 
name="line.157"></a>
+<span class="sourceLineNo">158</span>import 
org.apache.hbase.thirdparty.com.google.common.collect.Multimap;<a 
name="line.158"></a>
+<span class="sourceLineNo">159</span>import 
org.apache.hbase.thirdparty.com.google.common.collect.Ordering;<a 
name="line.159"></a>
+<span class="sourceLineNo">160</span>import 
org.apache.hbase.thirdparty.com.google.common.collect.TreeMultimap;<a 
name="line.160"></a>
+<span class="sourceLineNo">161</span><a name="line.161"></a>
+<span class="sourceLineNo">162</span>import 
org.apache.hadoop.hbase.shaded.protobuf.ProtobufUtil;<a name="line.162"></a>
+<span class="sourceLineNo">163</span>import 
org.apache.hadoop.hbase.shaded.protobuf.generated.AdminProtos.AdminService.BlockingInterface;<a
 name="line.163"></a>
+<span class="sourceLineNo">164</span><a name="line.164"></a>
+<span class="sourceLineNo">165</span>/**<a name="line.165"></a>
+<span class="sourceLineNo">166</span> * HBaseFsck (hbck) is a tool for 
checking and repairing region consistency and<a name="line.166"></a>
+<span class="sourceLineNo">167</span> * table integrity problems in a 
corrupted HBase.<a name="line.167"></a>
+<span class="sourceLineNo">168</span> * &lt;p&gt;<a name="line.168"></a>
+<span class="sourceLineNo">169</span> * Region consistency checks verify that 
hbase:meta, region deployment on region<a name="line.169"></a>
+<span class="sourceLineNo">170</span> * servers and the state of data in HDFS 
(.regioninfo files) all are in<a name="line.170"></a>
+<span class="sourceLineNo">171</span> * accordance.<a name="line.171"></a>
+<span class="sourceLineNo">172</span> * &lt;p&gt;<a name="line.172"></a>
+<span class="sourceLineNo">173</span> * Table integrity checks verify that all 
possible row keys resolve to exactly<a name="line.173"></a>
+<span class="sourceLineNo">174</span> * one region of a table.  This means 
there are no individual degenerate<a name="line.174"></a>
+<span class="sourceLineNo">175</span> * or backwards regions; no holes between 
regions; and that there are no<a name="line.175"></a>
+<span class="sourceLineNo">176</span> * overlapping regions.<a 
name="line.176"></a>
+<span class="sourceLineNo">177</span> * &lt;p&gt;<a name="line.177"></a>
+<span class="sourceLineNo">178</span> * The general repair strategy works in 
two phases:<a name="line.178"></a>
+<span class="sourceLineNo">179</span> * &lt;ol&gt;<a name="line.179"></a>
+<span class="sourceLineNo">180</span> * &lt;li&gt; Repair Table Integrity on 
HDFS. (merge or fabricate regions)<a name="line.180"></a>
+<span class="sourceLineNo">181</span> * &lt;li&gt; Repair Region Consistency 
with hbase:meta and assignments<a name="line.181"></a>
+<span class="sourceLineNo">182</span> * &lt;/ol&gt;<a name="line.182"></a>
+<span class="sourceLineNo">183</span> * &lt;p&gt;<a name="line.183"></a>
+<span class="sourceLineNo">184</span> * For table integrity repairs, the 
tables' region directories are scanned<a name="line.184"></a>
+<span class="sourceLineNo">185</span> * for .regioninfo files.  Each table's 
integrity is then verified.  If there<a name="line.185"></a>
+<span class="sourceLineNo">186</span> * are any orphan regions (regions with 
no .regioninfo files) or holes, new<a name="line.186"></a>
+<span class="sourceLineNo">187</span> * regions are fabricated.  Backwards 
regions are sidelined as well as empty<a name="line.187"></a>
+<span class="sourceLineNo">188</span> * degenerate (endkey==startkey) regions. 
 If there are any overlapping regions,<a name="line.188"></a>
+<span class="sourceLineNo">189</span> * a new region is created and all data 
is merged into the new region.<a name="line.189"></a>
+<span class="sourceLineNo">190</span> * &lt;p&gt;<a name="line.190"></a>
+<span class="sourceLineNo">191</span> * Table integrity repairs deal solely 
with HDFS and could potentially be done<a name="line.191"></a>
+<span class="sourceLineNo">192</span> * offline -- the hbase region servers or 
master do not need to be running.<a name="line.192"></a>
+<span class="sourceLineNo">193</span> * This phase can eventually be used to 
completely reconstruct the hbase:meta table in<a name="line.193"></a>
+<span class="sourceLineNo">194</span> * an offline fashion.<a 
name="line.194"></a>
+<span class="sourceLineNo">195</span> * &lt;p&gt;<a name="line.195"></a>
+<span class="sourceLineNo">196</span> * Region consistency requires three 
conditions -- 1) valid .regioninfo file<a name="line.196"></a>
+<span class="sourceLineNo">197</span> * present in an HDFS region dir,  2) 
valid row with .regioninfo data in META,<a name="line.197"></a>
+<span class="sourceLineNo">198</span> * and 3) a region is deployed only at 
the regionserver that was assigned to<a name="line.198"></a>
+<span class="sourceLineNo">199</span> * with proper state in the master.<a 
name="line.199"></a>
+<span class="sourceLineNo">200</span> * &lt;p&gt;<a name="line.200"></a>
+<span class="sourceLineNo">201</span> * Region consistency repairs require 
hbase to be online so that hbck can<a name="line.201"></a>
+<span class="sourceLineNo">202</span> * contact the HBase master and region 
servers.  The hbck#connect() method must<a name="line.202"></a>
+<span class="sourceLineNo">203</span> * first be called successfully.  Much of 
the region consistency information<a name="line.203"></a>
+<span class="sourceLineNo">204</span> * is transient and less risky to 
repair.<a name="line.204"></a>
+<span class="sourceLineNo">205</span> * &lt;p&gt;<a name="line.205"></a>
+<span class="sourceLineNo">206</span> * If hbck is run from the command line, 
there are a handful of arguments that<a name="line.206"></a>
+<span class="sourceLineNo">207</span> * can be used to limit the kinds of 
repairs hbck will do.  See the code in<a name="line.207"></a>
+<span class="sourceLineNo">208</span> * {@link #printUsageAndExit()} for more 
details.<a name="line.208"></a>
+<span class="sourceLineNo">209</span> */<a name="line.209"></a>
+<span 
class="sourceLineNo">210</span>@InterfaceAudience.LimitedPrivate(HBaseInterfaceAudience.TOOLS)<a
 name="line.210"></a>
+<span class="sourceLineNo">211</span>@InterfaceStability.Evolving<a 
name="line.211"></a>
+<span class="sourceLineNo">212</span>public class HBaseFsck extends Configured 
implements Closeable {<a name="line.212"></a>
+<span class="sourceLineNo">213</span>  public static final long 
DEFAULT_TIME_LAG = 60000; // default value of 1 minute<a name="line.213"></a>
+<span class="sourceLineNo">214</span>  public static final long 
DEFAULT_SLEEP_BEFORE_RERUN = 10000;<a name="line.214"></a>
+<span class="sourceLineNo">215</span>  private static final int 
MAX_NUM_THREADS = 50; // #threads to contact regions<a name="line.215"></a>
+<span class="sourceLineNo">216</span>  private static boolean 
rsSupportsOffline = true;<a name="line.216"></a>
+<span class="sourceLineNo">217</span>  private static final int 
DEFAULT_OVERLAPS_TO_SIDELINE = 2;<a name="line.217"></a>
+<span class="sourceLineNo">218</span>  private static final int 
DEFAULT_MAX_MERGE = 5;<a name="line.218"></a>
+<span class="sourceLineNo">219</span>  private static final String 
TO_BE_LOADED = "to_be_loaded";<a name="line.219"></a>
+<span class="sourceLineNo">220</span>  private static final String 
HBCK_LOCK_FILE = "hbase-hbck.lock";<a name="line.220"></a>
+<span class="sourceLineNo">221</span>  private static final int 
DEFAULT_MAX_LOCK_FILE_ATTEMPTS = 5;<a name="line.221"></a>
+<span class="sourceLineNo">222</span>  private static final int 
DEFAULT_LOCK_FILE_ATTEMPT_SLEEP_INTERVAL = 200; // milliseconds<a 
name="line.222"></a>
+<span class="sourceLineNo">223</span>  private static final int 
DEFAULT_LOCK_FILE_ATTEMPT_MAX_SLEEP_TIME = 5000; // milliseconds<a 
name="line.223"></a>
+<span class="sourceLineNo">224</span>  // We have to set the timeout value 
&gt; HdfsConstants.LEASE_SOFTLIMIT_PERIOD.<a name="line.224"></a>
+<span class="sourceLineNo">225</span>  // In HADOOP-2.6 and later, the 
Namenode proxy now created with custom RetryPolicy for<a name="line.225"></a>
+<span class="sourceLineNo">226</span>  // AlreadyBeingCreatedException which 
is implies timeout on this operations up to<a name="line.226"></a>
+<span class="sourceLineNo">227</span>  // HdfsConstants.LEASE_SOFTLIMIT_PERIOD 
(60 seconds).<a name="line.227"></a>
+<span class="sourceLineNo">228</span>  private static final int 
DEFAULT_WAIT_FOR_LOCK_TIMEOUT = 80; // seconds<a name="line.228"></a>
+<span class="sourceLineNo">229</span>  private static final int 
DEFAULT_MAX_CREATE_ZNODE_ATTEMPTS = 5;<a name="line.229"></a>
+<span class="sourceLineNo">230</span>  private static final int 
DEFAULT_CREATE_ZNODE_ATTEMPT_SLEEP_INTERVAL = 200; // milliseconds<a 
name="line.230"></a>
+<span class="sourceLineNo">231</span>  private static final int 
DEFAULT_CREATE_ZNODE_ATTEMPT_MAX_SLEEP_TIME = 5000; // milliseconds<a 
name="line.231"></a>
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+<span class="sourceLineNo">233</span>  /**********************<a 
name="line.233"></a>
+<span class="sourceLineNo">234</span>   * Internal resources<a 
name="line.234"></a>
+<span class="sourceLineNo">235</span>   **********************/<a 
name="line.235"></a>
+<span class="sourceLineNo">236</span>  private static final Logger LOG = 
LoggerFactory.getLogger(HBaseFsck.class.getName());<a name="line.236"></a>
+<span class="sourceLineNo">237</span>  private ClusterMetrics status;<a 
name="line.237"></a>
+<span class="sourceLineNo">238</span>  private ClusterConnection connection;<a 
name="line.238"></a>
+<span class="sourceLineNo">239</span>  private Admin admin;<a 
name="line.239"></a>
+<span class="sourceLineNo">240</span>  private Table meta;<a 
name="line.240"></a>
+<span class="sourceLineNo">241</span>  // threads to do ||izable tasks: 
retrieve data from regionservers, handle overlapping regions<a 
name="line.241"></a>
+<span class="sourceLineNo">242</span>  protected ExecutorService executor;<a 
name="line.242"></a>
+<span class="sourceLineNo">243</span>  private long startMillis = 
EnvironmentEdgeManager.currentTime();<a name="line.243"></a>
+<span class="sourceLineNo">244</span>  private HFileCorruptionChecker hfcc;<a 
name="line.244"></a>
+<span class="sourceLineNo">245</span>  private int retcode = 0;<a 
name="line.245"></a>
+<span class="sourceLineNo">246</span>  private Path HBCK_LOCK_PATH;<a 
name="line.246"></a>
+<span class="sourceLineNo">247</span>  private FSDataOutputStream hbckOutFd;<a 
name="line.247"></a>
+<span class="sourceLineNo">248</span>  // This lock is to prevent cleanup of 
balancer resources twice between<a name="line.248"></a>
+<span class="sourceLineNo">249</span>  // ShutdownHook and the main code. We 
cleanup only if the connect() is<a name="line.249"></a>
+<span class="sourceLineNo">250</span>  // successful<a name="line.250"></a>
+<span class="sourceLineNo">251</span>  private final AtomicBoolean 
hbckLockCleanup = new AtomicBoolean(false);<a name="line.251"></a>
+<span class="sourceLineNo">252</span><a name="line.252"></a>
+<span class="sourceLineNo">253</span>  // Unsupported options in HBase 2.0+<a 
name="line.253"></a>
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unsupportedOptionsInV2 = Sets.newHashSet("-fix",<a name="line.254"></a>
+<span class="sourceLineNo">255</span>      "-fixAssignments", "-fixMeta", 
"-fixHdfsHoles", "-fixHdfsOrphans", "-fixTableOrphans",<a name="line.255"></a>
+<span class="sourceLineNo">256</span>      "-fixHdfsOverlaps", 
"-sidelineBigOverlaps", "-fixSplitParents", "-removeParents",<a 
name="line.256"></a>
+<span class="sourceLineNo">257</span>      "-fixEmptyMetaCells", "-repair", 
"-repairHoles", "-maxOverlapsToSideline", "-maxMerge");<a name="line.257"></a>
+<span class="sourceLineNo">258</span><a name="line.258"></a>
+<span class="sourceLineNo">259</span>  /***********<a name="line.259"></a>
+<span class="sourceLineNo">260</span>   * Options<a name="line.260"></a>
+<span class="sourceLineNo">261</span>   ***********/<a name="line.261"></a>
+<span class="sourceLineNo">262</span>  private static boolean details = false; 
// do we display the full report<a name="line.262"></a>
+<span class="sourceLineNo">263</span>  private long timelag = 
DEFAULT_TIME_LAG; // tables whose modtime is older<a name="line.263"></a>
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false; // only this hbck can modify HBase<a name="line.264"></a>
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// fix assignment errors?<a name="line.265"></a>
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meta errors?<a name="line.266"></a>
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load and check fs consistency?<a name="line.267"></a>
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// fix fs holes?<a name="line.268"></a>
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false; // fix fs overlaps (risky)<a name="line.269"></a>
+<span class="sourceLineNo">270</span>  private boolean fixHdfsOrphans = false; 
// fix fs holes (missing .regioninfo)<a name="line.270"></a>
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false; // fix fs holes (missing .tableinfo)<a name="line.271"></a>
+<span class="sourceLineNo">272</span>  private boolean fixVersionFile = false; 
// fix missing hbase.version file in hdfs<a name="line.272"></a>
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false; // fix lingering split parents<a name="line.273"></a>
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// remove split parents<a name="line.274"></a>
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false; // fix lingering reference store file<a name="line.275"></a>
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// fix lingering HFileLinks<a name="line.276"></a>
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false; // fix (remove) empty REGIONINFO_QUALIFIER rows<a name="line.277"></a>
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// fix undeleted replication queues for removed peer<a name="line.278"></a>
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= false; // clean replication barriers of a table<a name="line.279"></a>
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to true if any of the fix is required.<a name="line.280"></a>
 <span class="sourceLineNo">281</span><a name="line.281"></a>
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// if we want to print less output<a name="line.283"></a>
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false;<a name="line.285"></a>
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name="line.286"></a>
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-<span class="sourceLineNo">288</span>  /*********<a name="line.288"></a>
-<span class="sourceLineNo">289</span>   * State<a name="line.289"></a>
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information contained in HbckInfo is used<a name="line.296"></a>
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hbase:meta<a name="line.300"></a>
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-<span class="sourceLineNo">303</span>  /**<a name="line.303"></a>
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TableInfo contains the structures necessary to<a name="line.304"></a>
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-<span class="sourceLineNo">306</span>   * to prevent dupes.<a 
name="line.306"></a>
-<span class="sourceLineNo">307</span>   *<a name="line.307"></a>
-<span class="sourceLineNo">308</span>   * If tablesIncluded is empty, this map 
contains all tables.<a name="line.308"></a>
-<span class="sourceLineNo">309</span>   * Otherwise, it contains only meta 
tables and tables in tablesIncluded,<a name="line.309"></a>
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attempt to find any orphaned data.<a name="line.316"></a>
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orphanHdfsDirs = Collections.synchronizedList(new 
ArrayList&lt;HbckInfo&gt;());<a name="line.318"></a>
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Set&lt;String&gt;&gt; orphanTableDirs = new HashMap&lt;&gt;();<a 
name="line.320"></a>
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TableState&gt; tableStates = new HashMap&lt;&gt;();<a name="line.321"></a>
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lockFileRetryCounterFactory;<a name="line.322"></a>
-<span class="sourceLineNo">323</span>  private final RetryCounterFactory 
createZNodeRetryCounterFactory;<a name="line.323"></a>
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tables, if empty attempt to check/fix all<a name="line.282"></a>
+<span class="sourceLineNo">283</span>  // hbase:meta are always checked<a 
name="line.283"></a>
+<span class="sourceLineNo">284</span>  private Set&lt;TableName&gt; 
tablesIncluded = new HashSet&lt;&gt;();<a name="line.284"></a>
+<span class="sourceLineNo">285</span>  private TableName 
cleanReplicationBarrierTable;<a name="line.285"></a>
+<span class="sourceLineNo">286</span>  private int maxMerge = 
DEFAULT_MAX_MERGE; // maximum number of overlapping regions to merge<a 
name="line.286"></a>
+<span class="sourceLineNo">287</span>  // maximum number of overlapping 
regions to sideline<a name="line.287"></a>
+<span class="sourceLineNo">288</span>  private int maxOverlapsToSideline = 
DEFAULT_OVERLAPS_TO_SIDELINE;<a name="line.288"></a>
+<span class="sourceLineNo">289</span>  private boolean sidelineBigOverlaps = 
false; // sideline overlaps with &gt;maxMerge regions<a name="line.289"></a>
+<span class="sourceLineNo">290</span>  private Path sidelineDir = null;<a 
name="line.290"></a>
+<span class="sourceLineNo">291</span><a name="line.291"></a>
+<span class="sourceLineNo">292</span>  private boolean rerun = false; // if we 
tried to fix something, rerun hbck<a name="line.292"></a>
+<span class="sourceLineNo">293</span>  private static boolean summary = false; 
// if we want to print less output<a name="line.293"></a>
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false;<a name="line.294"></a>
+<span class="sourceLineNo">295</span>  private boolean checkRegionBoundaries = 
false;<a name="line.295"></a>
+<span class="sourceLineNo">296</span>  private boolean 
ignorePreCheckPermission = false; // if pre-check permission<a 
name="line.296"></a>
+<span class="sourceLineNo">297</span><a name="line.297"></a>
+<span class="sourceLineNo">298</span>  /*********<a name="line.298"></a>
+<span class="sourceLineNo">299</span>   * State<a name="line.299"></a>
+<span class="sourceLineNo">300</span>   *********/<a name="line.300"></a>
+<span class="sourceLineNo">301</span>  final private ErrorReporter errors;<a 
name="line.301"></a>
+<span class="sourceLineNo">302</span>  int fixes = 0;<a name="line.302"></a>
+<span class="sourceLineNo">303</span><a name="line.303"></a>
+<span class="sourceLineNo">304</span>  /**<a name="line.304"></a>
+<span class="sourceLineNo">305</span>   * This map contains the state of all 
hbck items.  It maps from encoded region<a name="line.305"></a>
+<span class="sourceLineNo">306</span>   * name to HbckInfo structure.  The 
information contained in HbckInfo is used<a name="line.306"></a>
+<span class="sourceLineNo">307</span>   * to detect and correct consistency 
(hdfs/meta/deployment) problems.<a name="line.307"></a>
+<span class="sourceLineNo">308</span>   */<a name="line.308"></a>
+<span class="sourceLineNo">309</span>  private TreeMap&lt;String, HbckInfo&gt; 
regionInfoMap = new TreeMap&lt;&gt;();<a name="line.309"></a>
+<span class="sourceLineNo">310</span>  // Empty regioninfo qualifiers in 
hbase:meta<a name="line.310"></a>
+<span class="sourceLineNo">311</span>  private Set&lt;Result&gt; 
emptyRegionInfoQualifiers = new HashSet&lt;&gt;();<a name="line.311"></a>
+<span class="sourceLineNo">312</span><a name="line.312"></a>
+<span class="sourceLineNo">313</span>  /**<a name="line.313"></a>
+<span class="sourceLineNo">314</span>   * This map from Tablename -&gt; 
TableInfo contains the structures necessary to<a name="line.314"></a>
+<span class="sourceLineNo">315</span>   * detect table consistency problems 
(holes, dupes, overlaps).  It is sorted<a name="line.315"></a>
+<span class="sourceLineNo">316</span>   * to prevent dupes.<a 
name="line.316"></a>
+<span class="sourceLineNo">317</span>   *<a name="line.317"></a>
+<span class="sourceLineNo">318</span>   * If tablesIncluded is empty, this map 
contains all tables.<a name="line.318"></a>
+<span class="sourceLineNo">319</span>   * Otherwise, it contains only meta 
tables and tables in tablesIncluded,<a name="line.319"></a>
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in which case, it contains only<a name="line.320"></a>
+<span class="sourceLineNo">321</span>   * the meta table<a name="line.321"></a>
+<span class="sourceLineNo">322</span>   */<a name="line.322"></a>
+<span class="sourceLineNo">323</span>  private SortedMap&lt;TableName, 
TableInfo&gt; tablesInfo = new ConcurrentSkipListMap&lt;&gt;();<a 
name="line.323"></a>
 <span class="sourceLineNo">324</span><a name="line.324"></a>
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Set&lt;String&gt;&gt; skippedRegions = new HashMap&lt;&gt;();<a 
name="line.325"></a>
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name="line.327"></a>
-<span class="sourceLineNo">328</span>  private String hbckEphemeralNodePath = 
null;<a name="line.328"></a>
-<span class="sourceLineNo">329</span>  private boolean hbckZodeCreated = 
false;<a name="line.329"></a>
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createThreadPool(Configuration conf) {<a name="line.342"></a>
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conf.getInt("hbasefsck.numthreads", MAX_NUM_THREADS);<a name="line.343"></a>
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ScheduledThreadPoolExecutor(numThreads, 
Threads.newDaemonThreadFactory("hbasefsck"));<a name="line.344"></a>
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-<span class="sourceLineNo">348</span>   * Constructor<a name="line.348"></a>
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IOException, ClassNotFoundException {<a name="line.358"></a>
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getConf().getInt("hbase.hbck.lockfile.attempts", 
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"hbase.hbck.lockfile.attempt.sleep.interval", 
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getConf().getInt("hbase.hbck.createznode.attempts", 
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"hbase.hbck.createznode.attempt.sleep.interval",<a name="line.371"></a>
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"hbase.hbck.createznode.attempt.maxsleeptime",<a name="line.374"></a>
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name="line.415"></a>
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(retryCounter.getAttemptTimes() + 1) + " of "<a name="line.417"></a>
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retryCounter.getMaxAttempts());<a name="line.418"></a>
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retryCounter.sleepUntilNextRetry();<a name="line.423"></a>
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+ hbckLockFilePath.getName())<a name="line.426"></a>
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(retryCounter.shouldRetry());<a name="line.430"></a>
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file. If the creation fails we return null<a name="line.437"></a>
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futureTask.get(timeoutInSeconds, TimeUnit.SECONDS);<a name="line.452"></a>
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name="line.453"></a>
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name="line.455"></a>
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Thread.currentThread().interrupt();<a name="line.457"></a>
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IOUtils.closeQuietly(hbckOutFd);<a name="line.473"></a>
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FSUtils.delete(FSUtils.getCurrentFileSystem(getConf()),<a name="line.474"></a>
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name="line.475"></a>
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retryCounter.getMaxAttempts());<a name="line.481"></a>
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retryCounter.sleepUntilNextRetry();<a name="line.484"></a>
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want to cleanup the lock so that<a name="line.519"></a>
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calls<a name="line.520"></a>
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Runtime.getRuntime().addShutdownHook(new Thread() {<a name="line.521"></a>
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name="line.523"></a>
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IOUtils.closeQuietly(HBaseFsck.this);<a name="line.524"></a>
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name="line.530"></a>
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Option.HBASE_VERSION));<a name="line.537"></a>
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+<span class="sourceLineNo">326</span>   * When initially looking at HDFS, we 
attempt to find any orphaned data.<a name="line.326"></a>
+<span class="sourceLineNo">327</span>   */<a name="line.327"></a>
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orphanHdfsDirs = Collections.synchronizedList(new 
ArrayList&lt;HbckInfo&gt;());<a name="line.328"></a>
+<span class="sourceLineNo">329</span><a name="line.329"></a>
+<span class="sourceLineNo">330</span>  private Map&lt;TableName, 
Set&lt;String&gt;&gt; orphanTableDirs = new HashMap&lt;&gt;();<a 
name="line.330"></a>
+<span class="sourceLineNo">331</span>  private Map&lt;TableName, 
TableState&gt; tableStates = new HashMap&lt;&gt;();<a name="line.331"></a>
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lockFileRetryCounterFactory;<a name="line.332"></a>
+<span class="sourceLineNo">333</span>  private final RetryCounterFactory 
createZNodeRetryCounterFactory;<a name="line.333"></a>
+<span class="sourceLineNo">334</span><a name="line.334"></a>
+<span class="sourceLineNo">335</span>  private Map&lt;TableName, 
Set&lt;String&gt;&gt; skippedRegions = new HashMap&lt;&gt;();<a 
name="line.335"></a>
+<span class="sourceLineNo">336</span><a name="line.336"></a>
+<span class="sourceLineNo">337</span>  private ZKWatcher zkw = null;<a 
name="line.337"></a>
+<span class="sourceLineNo">338</span>  private String hbckEphemeralNodePath = 
null;<a name="line.338"></a>
+<span class="sourceLineNo">339</span>  private boolean hbckZodeCreated = 
false;<a name="line.339"></a>
+<span class="sourceLineNo">340</span><a name="line.340"></a>
+<span class="sourceLineNo">341</span>  /**<a name="line.341"></a>
+<span class="sourceLineNo">342</span>   * Constructor<a name="line.342"></a>
+<span class="sourceLineNo">343</span>   *<a name="line.343"></a>
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name="line.344"></a>
+<span class="sourceLineNo">345</span>   * @throws MasterNotRunningException if 
the master is not running<a name="line.345"></a>
+<span class="sourceLineNo">346</span>   * @throws ZooKeeperConnectionException 
if unable to connect to ZooKeeper<a name="line.346"></a>
+<span class="sourceLineNo">347</span>   */<a name="line.347"></a>
+<span class="sourceLineNo">348</span>  public HBaseFsck(Configuration conf) 
throws IOException, ClassNotFoundException {<a name="line.348"></a>
+<span class="sourceLineNo">349</span>    this(conf, createThreadPool(conf));<a 
name="line.349"></a>
+<span class="sourceLineNo">350</span>  }<a name="line.350"></a>
+<span class="sourceLineNo">351</span><a name="line.351"></a>
+<span class="sourceLineNo">352</span>  private static ExecutorService 
createThreadPool(Configuration conf) {<a name="line.352"></a>
+<span class="sourceLineNo">353</span>    int numThreads = 
conf.getInt("hbasefsck.numthreads", MAX_NUM_THREADS);<a name="line.353"></a>
+<span class="sourceLineNo">354</span>    return new 
ScheduledThreadPoolExecutor(numThreads, 
Threads.newDaemonThreadFactory("hbasefsck"));<a name="line.354"></a>
+<span class="sourceLineNo">355</span>  }<a name="line.355"></a>
+<span class="sourceLineNo">356</span><a name="line.356"></a>
+<span class="sourceLineNo">357</span>  /**<a name="line.357"></a>
+<span class="sourceLineNo">358</span>   * Constructor<a name="line.358"></a>
+<span class="sourceLineNo">359</span>   *<a name="line.359"></a>
+<span class="sourceLineNo">360</span>   * @param conf<a name="line.360"></a>
+<span class="sourceLineNo">361</span>   *          Configuration object<a 
name="line.361"></a>
+<span class="sourceLineNo">362</span>   * @throws MasterNotRunningException<a 
name="line.362"></a>
+<span class="sourceLineNo">363</span>   *           if the master is not 
running<a name="line.363"></a>
+<span class="sourceLineNo">364</span>   * @throws 
ZooKeeperConnectionException<a name="line.364"></a>
+<span class="sourceLineNo">365</span>   *           if unable to connect to 
ZooKeeper<a name="line.365"></a>
+<span class="sourceLineNo">366</span>   */<a name="line.366"></a>
+<span class="sourceLineNo">367</span>  public HBaseFsck(Configuration conf, 
ExecutorService exec) throws MasterNotRunningException,<a name="line.367"></a>
+<span class="sourceLineNo">368</span>      ZooKeeperConnectionException, 
IOException, ClassNotFoundException {<a name="line.368"></a>
+<span class="sourceLineNo">369</span>    super(conf);<a name="line.369"></a>
+<span class="sourceLineNo">370</span>    errors = 
getErrorReporter(getConf());<a name="line.370"></a>
+<span class="sourceLineNo">371</span>    this.executor = exec;<a 
name="line.371"></a>
+<span class="sourceLineNo">372</span>    lockFileRetryCounterFactory = new 
RetryCounterFactory(<a name="line.372"></a>
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getConf().getInt("hbase.hbck.lockfile.attempts", 
DEFAULT_MAX_LOCK_FILE_ATTEMPTS),<a name="line.373"></a>
+<span class="sourceLineNo">374</span>      getConf().getInt(<a 
name="line.374"></a>
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"hbase.hbck.lockfile.attempt.sleep.interval", 
DEFAULT_LOCK_FILE_ATTEMPT_SLEEP_INTERVAL),<a name="line.375"></a>
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name="line.376"></a>
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"hbase.hbck.lockfile.attempt.maxsleeptime", 
DEFAULT_LOCK_FILE_ATTEMPT_MAX_SLEEP_TIME));<a name="line.377"></a>
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RetryCounterFactory(<a name="line.378"></a>
+<span class="sourceLineNo">379</span>      
getConf().getInt("hbase.hbck.createznode.attempts", 
DEFAULT_MAX_CREATE_ZNODE_ATTEMPTS),<a name="line.379"></a>
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name="line.380"></a>
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"hbase.hbck.createznode.attempt.sleep.interval",<a name="line.381"></a>
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DEFAULT_CREATE_ZNODE_ATTEMPT_SLEEP_INTERVAL),<a name="line.382"></a>
+<span class="sourceLineNo">383</span>      getConf().getInt(<a 
name="line.383"></a>
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"hbase.hbck.createznode.attempt.maxsleeptime",<a name="line.384"></a>
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DEFAULT_CREATE_ZNODE_ATTEMPT_MAX_SLEEP_TIME));<a name="line.385"></a>
+<span class="sourceLineNo">386</span>    zkw = createZooKeeperWatcher();<a 
name="line.386"></a>
+<span class="sourceLineNo">387</span>  }<a name="line.387"></a>
+<span class="sourceLineNo">388</span><a name="line.388"></a>
+<span class="sourceLineNo">389</span>  private class FileLockCallable 
implements Callable&lt;FSDataOutputStream&gt; {<a name="line.389"></a>
+<span class="sourceLineNo">390</span>    RetryCounter retryCounter;<a 
name="line.390"></a>
+<span class="sourceLineNo">391</span><a name="line.391"></a>
+<span class="sourceLineNo">392</span>    public FileLockCallable(RetryCounter 
retryCounter) {<a name="line.392"></a>
+<span class="sourceLineNo">393</span>      this.retryCounter = retryCounter;<a 
name="line.393"></a>
+<span class="sourceLineNo">394</span>    }<a name="line.394"></a>
+<span class="sourceLineNo">395</span>    @Override<a name="line.395"></a>
+<span class="sourceLineNo">396</span>    public FSDataOutputStream call() 
throws IOException {<a name="line.396"></a>
+<span c

<TRUNCATED>

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