IntelliJ sftp deployment stuck at 100%

I switched back to IntelliJ 15.0.6 and am seeing the same behavior, though base on the follow log information maybe it's an issue with our server? Here output from the IntelliJ 15.0.6 idea.log file:

2016-08-09 10:53:08,568 [ 42619] INFO - s.webDeployment.PublishUtils$2 - Using "/tmp/vfs_cache" as temporary files store. 
2016-08-09 10:53:08,662 [ 42713] INFO - ellij.project.impl.ProjectImpl - 27 project components initialized in 24 ms 
2016-08-09 10:53:08,662 [ 42713] INFO - le.impl.ModuleManagerComponent - 0 module(s) loaded in 0 ms 
2016-08-09 10:54:10,291 [ 104342] WARN - ins.webDeployment.TransferTask - Copy: file:///home/work/cloud/code/esweb/template/AccountSaleStatement.tpl to sftp://********/home/zac/code/esweb/template/AccountSaleStatement.tplfailed 
org.apache.commons.vfs2.FileSystemException: Could not copy "file:///home/work/cloud/code/esweb/template/AccountSaleStatement.tpl" to "sftp://********/home/zac/code/esweb/template/AccountSaleStatement.tpl".
 at com.jetbrains.plugins.webDeployment.TransferOperation.copyFrom(TransferOperation.java:854)
 at com.jetbrains.plugins.webDeployment.TransferOperation.copyFile(TransferOperation.java:736)
 at com.jetbrains.plugins.webDeployment.TransferOperation.access$200(TransferOperation.java:28)
 at com.jetbrains.plugins.webDeployment.TransferOperation$Copy.execute(TransferOperation.java:228)
 at com.jetbrains.plugins.webDeployment.TransferTask.executeOperations(TransferTask.java:499)
 at com.jetbrains.plugins.webDeployment.RemoteHostTask$5.compute(RemoteHostTask.java:232)
 at com.jetbrains.plugins.webDeployment.RemoteHostTask$5.compute(RemoteHostTask.java:230)
 at com.jetbrains.plugins.webDeployment.connections.RemoteConnection$2.compute(RemoteConnection.java:58)
 at com.jetbrains.plugins.webDeployment.connections.RemoteConnectionPool$RemoteConnectionImpl.executeServerOperation(RemoteConnectionPool.java:108)
 at com.jetbrains.plugins.webDeployment.connections.RemoteConnection.executeServerOperation(RemoteConnection.java:56)
 at com.jetbrains.plugins.webDeployment.RemoteHostTask.doRun(RemoteHostTask.java:230)
 at com.jetbrains.plugins.webDeployment.AutoUploadComponent$FileListenerImpl$2.run(AutoUploadComponent.java:474)
 at com.intellij.openapi.progress.impl.CoreProgressManager$TaskRunnable.run(CoreProgressManager.java:563)
 at com.intellij.openapi.progress.impl.CoreProgressManager$2.run(CoreProgressManager.java:142)
 at com.intellij.openapi.progress.impl.CoreProgressManager.a(CoreProgressManager.java:446)
 at com.intellij.openapi.progress.impl.CoreProgressManager.executeProcessUnderProgress(CoreProgressManager.java:392)
 at com.intellij.openapi.progress.impl.ProgressManagerImpl.executeProcessUnderProgress(ProgressManagerImpl.java:54)
 at com.intellij.openapi.progress.impl.CoreProgressManager.runProcess(CoreProgressManager.java:127)
 at com.intellij.openapi.progress.impl.ProgressManagerImpl$1.run(ProgressManagerImpl.java:126)
 at com.intellij.openapi.application.impl.ApplicationImpl$8.run(ApplicationImpl.java:366)
 at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
 at java.util.concurrent.FutureTask.run(FutureTask.java:266)
 at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
 at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
 at java.lang.Thread.run(Thread.java:745)
 at org.jetbrains.ide.PooledThreadExecutor$1$1.run(PooledThreadExecutor.java:55)
Caused by: org.apache.commons.vfs2.FileSystemException: Could not close the output stream for file "sftp://********/home/zac/code/esweb/template/AccountSaleStatement.tpl".
 at org.apache.commons.vfs2.provider.DefaultFileContent$FileContentOutputStream.close(DefaultFileContent.java:770)
 at com.jetbrains.plugins.webDeployment.FileTransferUtil.copyContent(FileTransferUtil.java:50)
 at com.jetbrains.plugins.webDeployment.TransferOperation.copyFrom(TransferOperation.java:851)
 ... 25 more
Caused by: java.io.IOException: Pipe closed
 at java.io.PipedInputStream.read(PipedInputStream.java:307)
 at java.io.PipedInputStream.read(PipedInputStream.java:377)
 at com.jcraft.jsch.ChannelSftp.fill(ChannelSftp.java:2882)
 at com.jcraft.jsch.ChannelSftp.header(ChannelSftp.java:2908)
 at com.jcraft.jsch.ChannelSftp.checkStatus(ChannelSftp.java:2446)
 at com.jcraft.jsch.ChannelSftp.access$300(ChannelSftp.java:36)
 at com.jcraft.jsch.ChannelSftp$1.flush(ChannelSftp.java:836)
 at com.jcraft.jsch.ChannelSftp$1.close(ChannelSftp.java:852)
 at org.apache.commons.vfs2.util.MonitorOutputStream.close(MonitorOutputStream.java:76)
 at org.apache.commons.vfs2.util.MonitorOutputStream.close(MonitorOutputStream.java:76)
 at org.apache.commons.vfs2.provider.DefaultFileContent$FileContentOutputStream.close(DefaultFileContent.java:766)
 ... 27 more

-- EDIT --

IntelliJ 15 does not hang indefinitely, it times out after 1 minute so I can continue working and close the application normally. 

Well, as a last ditch effort I thought, why not try a reboot? So I did and uploading via sftp is working now. No idea what or why but, there it is. And this is't even a windows box.

Hello,

Pipe error surely tells us about networking problems and, unfortunately, the whole thing has been happening under the Java's hood so I can't tell now why it happened. Maybe there were some pending updates? Was there anything in system logs at that time frame?